> Rice genetics / Vietnam preserving the environment and its resources improving the health of populations in developing countries understanding the evolution of developing societies 25 32 36 excellence in research The scientific priorities of IRD fit within a global framework dominated by climate change and a significant loss of biodiversity, the increasing importance of food safety issues, the appearance of emerging infectious diseases, and the intensification and growing complexity of globalisation. Understanding the impact of these planetary changes on natural ecosystems and societies is a major scientific challenge and core issue in developing countries. AnnuAl report 2012 • IRD page 21 excellence in research > New research instruments for partnerships As part of its goal to develop research partnerships with developing countries and to strengthen a finalised research operator, IRD has introduced new instruments: International Joint Research Units (LMI - Laboratoires mixtes internationaux) and Regional Pilot Programmes (PPR - Programmes pilotes régionaux). These joint initiatives are intended to build the research capacity of scientific communities in developing countries, at national and regional level, encouraging North-South and South-South part- nerships in order to meet major global development challenges. Most of the IRD units are PPR and/or LMI stakeholders. Created on the basis of on the strategic priorities identified as part of the 2011-2015 performance contract, the PPRs are coordination and governance structures for North-South equality which bring together and organise a network of various North-South research teams focused on multidisciplinary mutual objectives at the regional level. They aim for the greater involvement of developing country partners in setting up, managing and steering > Research laboratory / Benin page 22 IRD • AnnuAl report 2012 49% of co-publications with southern partners research programmes, strengthening the impact of research carried out by IRD and its partners for developing country societies, supporting training and innovation, and ensuring favourable conditions for obtaining co-funding for research in developing countries. In 2012, five new PPRs were approved in a variety of fields, such as environmental dynamics, resources and societies in Amazonia (AMAZ), heritage, resources and governance in Eastern and Southern Africa and the Indian Ocean (PAREGO), public policies, societies and globalisation in Sub-Saharan Africa (POLMAF), risks, vulnerabilities and their impacts in the Andes (RIVIA) or even soils, water, coastal areas and societies faced with risks in South and Southeast Asia (SELTAR). Launched in 2008, the International Joint Research Units produced a working environment which included the close involvement of IRD teams and their partners. Located within the partners’ premises, these operational structures are governed by developed and developing countries. They are based on a long-term commitment and offer a special opportunity to develop research, training and innovation activities based on joint projects using shared platforms (laboratories, equipment, electronic resources, documentaries, etc.). Ten international joint research units were created in 2012: seven in Sub-Saharan Africa, two in Latin America and one in Asia. For example, the heritage and water territories joint research units were created in Senegal in collaboration with several Senegalese and Mauritanian universities. Two other joint research units were established in the health sector: one in Gabon on zoonoses and the other in Cameroon and the Democratic Republic of the Congo on infectious diseases. excellence in research increase in the number of joint publications With developing countries 50% 40% > Biological data analysis / New Caledonia 20% > Publications: high visibility for IRD The number of articles published by IRD researchers has increased by approximately 3% and reached 1,270 references in the Web of Science. This represents a 40% increase since 2006. If we consider the scope of the Joint Research Units in which IRD is involved, this scientific production represents more than 3,500 articles1. The publications enjoy high visibility: 58% of these articles are featured in high-impact journals in their category2 and more than 11% in journals of excellence. Thus, 11 articles were published in the Journal of Hydrology, 8 in PNAS, 7 in Remote sensing of environment, 6 in Hydrology and earth system sciences, 5 in Plant physiology, Plos pathogens, Science and 2 in Nature. Each researcher contributes to two publications on average, and 6% of the 778 published research engineers or technicians have written more than five articles. The rate of joint publication with developing countries has now reached 49%. This increase is particularly striking in West Africa and Latin America. The joint publications concern mainly Senegal, Brazil, Peru, Cameroon, Benin and Burkina Faso. 30% In social sciences (SHS), IRD researchers published 275 articles, 58 publications and 217 publication chapters included in the Horizon database. A new indicator specific to social sciences was established in 2011 for the performance contract; it is based on a reference system created from AERES lists: 176 articles correspond to this reference system, i.e. two-thirds of the article production. 10% 0% 2006 2007 2008 2009 2010 2011 joint publications in developing countries West and Central Africa latin America Asia, pacific east Africa, southern Africa, indian ocean north Africa, Middle east increase in the number of publications betWeen 2006 and 2011 At least one ird researcher among authors publication of an ird join research unit 3,500 300 3,000 250 2,500 200 2,000 150 1,500 100 1,000 50 500 2006 2007 2008 2009 2010 2011 0 2009 2010 2011 1. The data applies to publications in 2011, since the year 2012 is still incomplete. 2. Subject categories of Web of science. AnnuAl report 2012 • IRD page 23 FOCUS excellence in research > Sample collection, MADANG mission / Papua New Guinea the madang 2012 expedition in a few figures > For the land mission • 8 study stations distributed from 200 to 3,700 m; • 1,500 measured and identified trees; • 620 plant specimens collected and placed in a herbarium; • 3,858 samples collected, i.e. approximately half a million insects; • Probably more than 60% representing new species for Science. > For the marine mission • 730 coastal samples and 150 samples taken from the sea up to 1,000 m in depth; • 400 coral species, 1,450 decapod crustacean species; • 4,500 mollusc species; • 320 shellfish species; • 1,300 fish species; • 300 algae species; • Probably 500 to 1,000 new species for Science. page 24 IRD • AnnuAl report 2012 > Red-footed Booby, MOM-ALIS mission / New Caledonia > Expeditions to learn about the land Geologists and natural hazard specialists came together to measure the movement of Vanikoro, an island located in the Solomon Archipelago on the Pacific Ring of Fire, in an area where the Australian Plate drops suddenly below the North Fiji Basin, on the edge of the Pacific Plate. The oceanic mission PANDORA made it possible to study the characteristics and flow of the ocean waters in the region of the Solomon sea, a key passage for the masses of water which flow from the Southeast Pacific to the equator, and determine the climatic variability of the equatorial Pacific. Furthermore, the BIFURCATION campaign enabled an understanding of regional ocean circulation in the Coral Sea by documenting the fate of the water of one of the main currents in this region, the North Caledonian Jet, when it meets the Queensland plateau off the coast of Australia. The seabird colonies of the Chesterfield Islands, at the heart of the Coral Sea, were studied during the MOM-ALIS mission that brought together IRD and CNRS researchers. Several marine biologists set off for the first missions of the PRISTINE project on the remote sites of the New Caledonia archipelago in order to carry out the first referencing of the marine biodiversity of several nearly untouched sites of the South Pacific. Lastly, as part of the international PIRATA programme, data was collected from five meteorological and oceanic buoys in the tropical Atlantic ocean. in developing countries Several exploration projects and expeditions have been carried out. Six years after Santo 2006 in Vanuatu and two years after Mozambique, IRD scientists, along with scientists from the National Museum of Natural History and Pro Natura International, explored the terrestrial and marine biodiversity of Papua New Guinea over three months as part of the MADANG 2012 mission. The Pakaihi I Te Moana, respect the ocean campaign enabled a better understanding of the biodiversity of the Marquesas Islands while another expedition was undertaken on board the French tuna seiner Torre Giulia in order to better understand the behaviour of fish which cluster around the floating objects used by fishermen. > Marine biodiversity study, PRISTINE mission / New Caledonia 1 des recherches d’excellence tournées vers les suds • préserver l’environneMent et les ressourCes Preserving the environment and its resources IRD researchers are studying the characteristics of tropical aquatic and continental environments, climate change and their effects on developing countries. Conducted in close collaboration with various French scientists and partner countries and focused on the Institute’s priority subject areas, these studies concern primarily volcanic and seismic risks and hazards, climate variability, water resources, the dynamics of natural and operated systems, the conservation of biodiversity, food safety and the sustainable management of sensitive environments, such as forests, coastlines and even glaciers. Observing, measuring and simulating in order to better assess vulnerability, understanding and predicting the functioning of natural ecosystems and those modified by humans, describing and modelling to better manage and anticipate change, transferring and sharing knowledge within increasingly structured communities at the national and regional level: these actions form the basis of such activities. The work in question – which is primarily multidisciplinary – often involves interactions or interfaces and increasingly combines environmental, health and social sciences. These studies are conducted within the framework of joint research units or joint international units. protecting caledonian mangroves the retreat of the andean glaciers conservation agriculture: towards sustainable rural development protecting lake titicaca protecting crops from biological attacks and insect pests monitoring indonesian volcanoes 26 27 28 29 30 31 957 researchers, engineers and technicians 821 articles Contact: der@ird.fr AnnuAl report 2012 • IRD page 25 excellence in research • preserving tHe environMent And its resourCes protecting caledonian mangroves A natural barrier against cyclones and coastal erosion, in addition to a source of food, mangroves are vital from both an ecological and economic perspective. However, due to population growth, increasing urbanisation, the development of industrial activities and the exploitation of natural resources, this ecosystem is disappearing at a rate of 1 to 2% per year worldwide. > Mangrove affected by the mining activity / New Caledonia A new caledonia partner Jacques Loquet Chairman of the Voh heritage and history association and the Koniambo environmental committee. “ The mangrove swamp is a highly coveted environment from an economic perspective. Since the dawn of time, people have lived off the products of mangrove swamps. Given our responsibility for environmental protection, we follow with keen interest the work conducted by IRD, which demonstrates the impact of mining operations on this ecosystem. In particular, we are monitoring the new water management systems which have been implemented.” contact Cyril Marchand – IMPMC Joint Research Unit (IRD / CNRS / Université Pierre et Marie Curie - Paris 6) cyril.marchand@ird.fr Resources: Chemical Geology, Geoderma page 26 IRD • AnnuAl report 2012 mangrove swamp is a coastal forest which develops between land and sea, with the lower part of the mangroves immersed in water. Such forests cover three quarters of the tropical coastline, i.e. nearly 150,000 km2. In New Caledonia, they cover nearly 80% of the island’s western coast. This ecosystem comprises different areas, each dominated by a specific mangrove species, depending on the topography of the soil and the tidal immersion time. This unusual ecosystem plays a fundamental role in the carbon cycle due to its remarkable ability to transform atmospheric CO2 into organic matter. Together with primary tropical forests, mangroves are the terrestrial ecosystem producing the most biomass. IRD researchers have shown that carbon stock can be estimated at 795 ± 65 tonnes per hectare of mangrove forest. Of this stock, 83% is stored in the soil, 14% in above-ground biomass and 3% in root biomass. However, when decomposing, the organic carbon stored produces CO2. The closer the mangrove forest is to the ocean, the more its soil is waterlogged, leading to reduced CO2 flows and a greater ability to trap this greenhouse gas. However, the biodiversity and productivity of mangrove forests depend on the type of climate in which they develop. The aim is now to develop a mangrove observatory by carrying out the same study in New Zealand, Vietnam and Senegal. > CO2 measurements / New Caledonia Furthermore, the New Caledonian mangrove acts as a buffer zone between mined massifs, rich in iron, manganese, nickel, chrome and cobalt, and the lagoon. Scientists have compared the heavy metal concentrations of two mangroves: one located downstream from a nickel mine and the other having an unexploited catchment area. The analysis of sediment core samples taken at low tide in the different mangrove areas showed concentrations of metals such as iron, nickel and chrome that were 10 to 100 times higher downstream of mining sites. The researchers also noted the biogeochemical processes specific to the various mangrove species. Thus, without the dense plant network created by the mangrove forest, pollutant-laden sediments could be remobilised towards the lagoon – a jewel of global biodiversity and significant source of income for the local peoples. Other studies have been conducted on the mangrove forests’ ability to act as a filter in relation to nutrient-rich effluents from aquaculture. Shellfish, mollusc and plant samples have enabled scientists to better understand the fate of discharges and to determine the real ability of mangroves to act as a filter. This work contributes to a better overall understanding of the processes governing this ecosystem. It will enable the implementation of suitable management systems in order to minimise the impact of economic activities on mangroves. excellence in research • preserving tHe environMent And its resourCes theretreatofthe andeanglaciers Glaciers help regulate water resources throughout the year. Apart from the exceptional biodiversity of mountain ecosystems, millions of Andean inhabitants also depend on such ecosystems for agriculture, hydroelectric power and city consumption. partner ecuador Patricio Andino and Rodrigo Espinosa Facultad de Ciencias Exactas y Naturales, PUCE, Ecuador. “ Since 2008, PUCE1 and IRD have collaborated on several projects concerning the study of glacial stream biodiversity on the slopes of the Antisana volcano. This revealed the fundamental role played by water produced by melting glaciers for biological diversity, which is in turn vital to maintaining the quality of the water used downstream for the irrigation of land and the consumption of the inhabitants of Quito. These studies are also being conducted on other volcanoes in Ecuador, in order to confirm the regional importance of glaciers for the aquatic biodiversity of the Andean páramos.” I RD researchers and their partners analysed ice changes across the entire tropical Andean region over more than three centuries. By studying moraines, rocky deposits left behind by the passage of glaciers which indicate their previous positions, glaciologists were able to prove a spectacular retreat over the last 30 years: the surface area of the glaciers of Colombia, Ecuador, Peru and Bolivia have been reduced by 30 to 50% and up to 80 to 100% in extreme cases. If temperatures continue to rise, most of them could disappear by the end of the century, thereby depriving many valley cities of water and deeply affecting the Andean peoples. The retreat of glaciers also endangers the biodiversity of glacial streams. Ecologists have studied in particular the aquatic fauna in the páramos, typical Andean ecosystems located at an altitude of between 3,500 and 5,000 m. For over a year, they took samples from glacial streams and listed several species, in particular insects, which inhabit these extreme environments. Their work shows that, as soon as the glacial coverage is reduced to the point where it only covers 30 to 50% of the drainage basin, several species begin to disappear. If the glaciers had to melt completely, nearly 40% of the species could disappear. In addition to the loss of biodiversity created, the entire mountain ecosystem could be disrupted. Insects play an important role in the decomposition of organic matter which enables the constitution of the soil. Moreover, the consequences for other species, such as fish, amphibians, birds and mammals, are hard to predict since the ecological role of most threatened invertebrates is currently still unknown. Lastly, insects provide a good indication of the quality of the water supplied to cities downstream and can be used as tools for better management of the resource. The work conducted by IRD also concerns the plant recolonisation of land exposed by the melting ice. Within the context of quick climate change, several barriers to this recolonisation were revealed by researchers. Due to limited seed dispersal, only certain species are able to quickly recolonise these areas. Furthermore, as the glacier retreats and moves away, weather conditions for plants become increasingly difficult (more droughts), leading to the disappearance of part of the species which colonised the site. Lastly, as a result of the fast rise in temperatures, the founding plants which favour the creation of a new Alpine ecosystem by forming a soil and providing protection against the cold and droughts, have little time to colonise the ground before having to compete with species from lower altitudes. All these factors weaken Alpine plant communities. In a context of global change, the aim of these various studies is to improve forecasts in order to better anticipate future impacts on Andean peoples and the unique biodiversity of these regions. > Water conductivity measurements in the Paramos / Ecuador 1. Pontificia Universidad Católica del Ecuador. contacts Bernard Francou – LTHE Joint Research Unit (CNRS-IRD-Université Joseph Fourier Grenoble 1) bernard.francou@ird.fr Olivier Dangles – BEI Research Unit olivier.dangles@ird.fr Fabien Anthelme – AMAP Joint Research Unit (Cirad-CNRS-Inra-IRD-Université Montpellier 2) fabien.anthelme@ird.fr Resources: The Cryosphere, Nature climate change, Journal of Vegetation Science, Plant Ecology & Diversity AnnuAl report 2012 • IRD page 27 excellence in research • preserving tHe environMent And its resourCes conservation agriculture: towards sustainablerural development Population growth and the impact of climate change on natural resources require a 70% overall increase in food production by 2050. However, the intensive use of pesticides and industrial agriculture are not sustainable. The implementation of alternative methods is becoming imperative. partner tunisia Pr Tahar Gallali Tunis University. “ The RIME-PAMPA project is both multidisciplinary and multicountry. In addition to the relevance of its subject area, it is an important collaboration project with a special approach: proper discussions during its design, the pooling of material and human resources, and above all the structure provided by a Research Master’s where our IRD colleagues accepted to share teaching and supervision tasks with us. This commitment gives full meaning to cooperation aimed at real knowledge sharing.” contacts Jean-Luc Chotte and Martial Bernoux – Eco&Sol Joint Research Unit (Cirad-IRD-Inra-Montpellier SupAgro) jean-luc.chotte@ird.fr / martial.bernoux@ird.fr Christian Valentin – BIOEMCO Joint Research Unit (AgroParisTech-CNRS-ENS Paris-Inra-IRD-Université Paris 6-Université Paris 12) christian.valentin@ird.fr Resources: Journal of Arid Environments, European Journal of Agronomy, Applied Soil Ecology, Outlook on agriculture page 28 IRD • AnnuAl report 2012 T he cultivation technique of sowing under plant cover is based on minimum mechanical soil disturbance, maintaining permanent plant cover and the direct sowing of crops through plant cover. Also referred to as conservation agriculture, it protects the soil against erosion and improves its fertility through constant additions of organic matter and a simulation of biological activities. However, this method requires certain technical skills, in particular regarding the choice of ground cover, which should not compete with cultivated crops. The distribution of these systems is faced with several constraints: social, cultural (disuse of ploughing), technical (training and learning expenses) and organisational, thus requiring the implementation of supporting policies. The purpose of the RIME PAMPA1 multidisciplinary project is to assess the advantages and disadvantages of this technique in order to understand the factors which will enable its adoption by farmers and ensure sustainable rural development. IRD researchers and their partners measured the environmental impacts of direct sowing at the landscape level in Tunisia, Madagascar and Vietnam. Assessments of the density of earthworm biomass and rain simulations enabled them to demonstrate that this technique favours biological activity and limits soil erosion. Through their decomposition, crop residues remaining on the ground ensure the renewal of the nutrients > Maize cultivated in combination with a forage cereal / Cameroon required for the next crop. Earthworms replace the activities of tilling and weeding. The researchers also compared the capacity of conventionally farmed soils and soils using direct sowing techniques to store carbon and assessed the stability and resilience of such storage faced with climate change. Furthermore, scientists have identified the constraints to adopting this system and are searching for alternatives. On small family farms, agriculture is combined with cattle breeding and manual labour is still very important. The lack of long-term support to farmers, their low investment capacity and the necessity of feeding cattle are further obstacles to the development of conservation agriculture. The soil and the value of its services are increasingly being seen as natural capital. Thanks to bio-economic modelling and a cost-benefit analysis of the direct sowing technique, the IRD teams and their partners initiated discussions on the dynamics and management of this capital. This multidisciplinary approach regarding the impact of sowing under plant cover on the environment and societies made it possible to start more extensive discussions on managing agro-ecosystems in such a way as to ensure the sustainable management of land while protecting soils and their fertility. 1. Multi-country support programme for agro-ecology. > Soil carbon measurement / Tunisia excellence in research • preserving tHe environMent And its resourCes protecting lake titicaca The Altiplano region of Bolivia, located at an altitude of 3,700m, is one of the main mining areas in the world. Many precious and commercially important metals are extensively mined in the region. However, this highly polluting activity is carried out to the detriment of peoples and ecosystems. partner bolivia Dario Acha Instituto de Ecología - Universidad Mayor de San Andres, Bolivia. “ This project brought together a network of researchers from Bolivia, Peru and France, in order to study the pollution of Lake Titicaca. This is the largest lake in the Altiplano region, the main source of fish protein for millions of people and the cradle of Incan civilisation. It is also a major tourist attraction and a unique environment. Despite alarming reports on the decline of the fishing industry, very little research has been conducted over the last thirty years. The first results could have a major impact on the protection of this ecosystem.” contact David Point – GET Joint Research Unit (CNRS-IRD-Université Toulouse 3) david.point@ird.fr Resource: International workshop “Fonctionnnement et contamination du lac Titicaca” (Functioning and Contamination of Lake Titicaca), 12-13 May 2011, Bolivia. > Lake Titicaca / Bolivia A t the border between Bolivia and Peru, Lake Titicaca covers approximately 8,500 km2. With 25 rivers emptying into the lake, it is at the centre of a great basin of 58,000 km2, which represents one of the main sources of food for the native peoples along its shores. The extraction of gold, silver, zinc, copper, bismuth, tin and even antimony has resulted in considerable quantities of mining waste being accumulated in this region for centuries past. This waste is a persistent source of pollution for the peoples, but also for the lake basin ecosystems characterised by a unique biodiversity. We assume that the uncontrolled mining activities, combined with extreme climatic conditions and the internal characteristics of these high-mountain lakes, play an important role in the deterioration of ecosystems and massive losses of biodiversity observed in the region. The fishing activity has increased from 3,000 tonnes per year in 1992 to 500 tonnes per year in 2005. In collaboration with its French, Bolivian and Peruvian partners, IRD is conducting research into the biogeochemical cycle of metallic pollutants and their dynamic in the lake ecosystem food webs of the Titicaca Lake basin. By characterising the sediment, water and various aquatic species through modern methods of molecular and isotopic analysis for trace metals1, the researchers are trying to identify the sources of contamination and their ecological impact, in addition to the physicochemical and microbiological factors which control the transformation and mobility of metal elements in the environment. In particular, scientists are working on mercury, a powerful neurotoxin which accumulates at all levels of the food chain. Children and pregnant women are particularly vulnerable and become contaminated by eating fish. In order to trace the source of mercury pollution, they perform molecular and isotopic analyses throughout the ecosystem. The study of contamination levels and their effect on the Titicaca ecosystem is currently a priority for local native peoples and Bolivian and Peruvian institutions alike. The research conducted by IRD and its partners will enable a better understanding of the processes involved, as well as their environmental and health impacts in order to inform and guide the local authorities. 1. In the field of environmental assessment, the analysis of the isotopic composition of some metal pollutants makes it possible to better differentiate the source of these pollutants and better understand their reactivity. AnnuAl report 2012 • IRD page 29 excellence in research • preserving tHe environMent And its resourCes protecting cropsfrom biologicalattacks andinsectpests The ability to protect cultivated plants from biological attacks is an essential part of developing sustainable agriculture and enabling food needs to be met. IRD teams are conducting many projects for this purpose. partner burkina faso “ Drissa Sereme Assistant Manager in the Laboratory of Virology and Plant Biotechnologies of the Environment and Agricultural Research Institute (INERA) - Burkina Faso. IRD and our laboratory have been collaborating for several years. We worked together on the rice yellow mottle virus due to its economic significance and originality as a biological model. The findings are very promising for my country. They should make it possible, on the one hand, to offer effective and sustainable disease control strategies to producers and, on the other hand, to consider the virus not as an enemy but rather as a biotechnological tool used in particular to manufacture vaccines.” contacts Michel Nicole – RPB Joint Research Unit (Cirad-IRD-Université Montpellier 2) michel.nicole@ird.fr – www.umr-rpb.fr Jean-François Silvain – BEI Research Unit jean-francois.silvain@ird.fr Resources: European Journal of Plant Pathology, Plos Pathogens, Phytopathology, Plant Protection Journal, Plos one, Bulletin of Entomological Research, Entomologia Experimentalis et Applicata. page 30 IRD • AnnuAl report 2012 > On the left, plant afflicted with rice yellow mosaic virus / Burkina Faso T > Corn borer (Sesamia nonagrioide) he study and responsible use of plant biodiversity are necessary for the development of ecologically intensive agriculture. The genetically improved resistance of cultivated species to pathogens and pests is a priority in an agricultural economic context which encourages the reduction of inputs and the use of phytosanitary products. IRD researchers and their partners in West and East Africa, Central and South America and Asia are studying the diversity of and changes in viral, bacterial, fungal and nematode1 resistance genes in certain cultivated plants, such as the coffee tree, rice, the banana tree and the coconut tree. These parasites have developed specific infection strategies in order to keep their host alive to complete their biological cycle. In particular, they eliminate these defence mechanisms. Some of the research conducted on rice concerns the understanding of these molecular mechanisms in order to offer sustainable resistance management. By studying the rice yellow mottle virus, scientists have isolated resistance-breaking strains in the African plant. Furthermore, these studies cast new light on the little-known causes and factors of emerging diseases. They contribute to the implementation of effective and sustainable response methods. Other teams are studying borer lepidopteran insects, which caterpillars feed on in African grasses. Their work demonstrates that these insects have been specifically subservient to this plant family for millions of years and that their diversity has increased significantly following the expansion of open savan- nah-type environments. They underline the specialised nature of current borers, which exploit only part of the potential host plants as a result of various attraction stimuli, mediated in particular by the sugar content of grasses. Based on the study of populations from a single species, found in both wild and cultivated resources, scientists also discovered that changes in the food-seeking behaviour of insects, and therefore the acquisition of pest status, were influenced by a major gene: the foraging gene. Different forms of this gene were found in the noctuid caterpillar2 in populations associated with wild plants on the one hand, and maize on the other hand. Lastly, climate change will have a growing impact on natural and man-made ecosystems and on parasites and pests. In this regard, the young associated team KENCCA3 is conducting a project concerning the impact of these changes on the agricultural system in Kenya. In addition to these studies, an analysis of the impact of soils with high silica content on the activity of grass borers in maize plantations is underway. Thus, these multidisciplinary projects aim to develop knowledge of the aetiology of plant diseases and the behaviour of pathogenic microorganisms and pests. They will make it possible to better protect crops and strengthen food safety in developing countries. 1. Invertebrate animal from the worm group. 2. Sesamia nonagrioides. 3. Kenyan Climate Change and Adaptation. excellence in research • preserving tHe environMent And its resourCes monitoring indonesian volcanoes With more than 120 active volcanoes across 4,000 km of the archipelago and 10 eruptions per year on average, Indonesia is the country most exposed to volcanic hazards in the world. The very high population density across these islands means a large amount of inhabitants are extremely vulnerable. Improved monitoring is a true challenge for this archipelago. indonesia partner Dr Surono Director of the Indonesian Centre for Volcanology and Geological Hazards Mitigation. “ I am happy to welcome IRD agents and I expect this collaboration to provide research material on specific subjects which will help my decision-making in order to reduce risks and prevent human deaths as far as possible. Research is often contributed after eruptive events, in an attempt to understand how the eruption occurred, among other reasons. This approach is desirable, but in order to make important decisions in the event of a crisis, the studies conducted with IRD before and during the eruptions are essential.” contacts Philipson Bani - LMV Joint Research Unit (CNRS-IRD-Université Blaise Pascal-Université Jean Monnet) philipson.bani@ird.fr Jean-Philippe Metaxian - ISTerre Joint Research Unit (CNRS-Ifsttar-IRD-Université Grenoble 1 – Université de Savoie) jean-philippe.metaxian@ird.fr Jean-Paul Toutain - IRD representative in Indonesia jean-paul.toutain@ird.fr Resources: Journal of Volcanology and Geothermal Research E very year, the Indonesian population suffers the consequences of volcanic eruptions. IRD collaborates with the Indonesian centre for the reduction of volcanic hazards1, which monitors 76 of the archipelago’s active volcanoes. The multidisciplinary project MEGAVOL 2 aims therefore to develop new monitoring methods suited to the specific context of Indonesian volcanism and directly applicable to the local volcanic hazard management system. Another component of this programme is the creation of an instrumental platform enabling the optimal analysis of the geophysical and geochemical data transmitted by the stations located on the sides of volcanoes. It will enable warning signals to be detected as soon as possible. The aim is also to expand the volcanic monitoring network by 2014 so that each active volcano may be equipped with at least one station. This is the case on the Moluccas archipelago which is comprised of five very active volcanoes: Gamalama, Gamkonora, Kebesi, Ibu and Dukono. The monitoring system for these volcanoes is insufficient. Only one to two seismic stations were set up per volcano. This is why IRD was requested to strengthen this monitoring network. The researchers will initially work on the Gamalama and Dukono volcanoes, at the foot of which two of the archipelago’s main cities were built, each counting 50,000 inhabitants. Four stations will be established in 2013. The IRD researchers and their partners are also studying Merapi, one of the most active and explosive volcanoes in Indonesia. Located on the island of Java about 30 kilometres from the city of Yogyakarta, it threatens more than 500,000 people. Its most recent eruption, in 2010, required 300,000 people to be evacuated within a radius of 20 km, greatly disrupting the region’s social and economic balance. Two hundred people were killed. Therefore, improved monitoring and the management of such hazards are considered a priority for Indonesian authorities. Although scientists recognise the early signs of an eruption, it is difficult to predict the intensity. Volcanoes are complex systems of magma transfer from deep areas up to the surface and each stage results in physicochemical changes of the lava causing the type of eruption. The DOMERAPI3 programme is intended to study the magma reservoirs and eruptive processes of the Merapi volcano. Ultimately, it will lead to a better understanding of these processes in order to better predict the impact of eruptions on the populations. By improving the volcano monitoring system and local scientific expertise, the projects conducted by IRD and its partners in Indonesia will also support local authorities with the implementation of more effective prevention policies, risk management policies and population protection policies. 1. Centre for Volcanology and Geological Hazards Mitigation, CVGHM. 2. Geophysical methods for monitoring. 3. ANR programme - Dynamics of an arc volcano with lava domes, the Merapi. > Monitoring of Talang volcano / Indonesia AnnuAl report 2012 • IRD page 31 33 34 35 2 des recherches d’excellence tournées vers les suds • AMéliorer lA sAnté des populAtions du sud a natural alternative to antibiotics in the poultry industry towards the elimination of sleeping sickness a new approach to vaccine manufacturing imProving the health of PoPulations in develoPing countries 390 researchers, engineers and technicians 425 articles Contact: dsa@ird.fr page 32 IRD • AnnuAl report 2012 The health of populations is a major challenge for IRD and lies at the heart of the Millennium Development Goals. Research activities in the field of health are part of four main subject areas: infectious diseases and in particular those related to poverty, such as malaria, HIV infection or tuberculosis, rare or neglected diseases and emerging infectious diseases. In addition to the basic research, the following subjects are addressed: access to prevention, health care and treatment, developments in terms of diagnostic methods, medicine, vaccines and vector control. So-called “lifestyle diseases”, the main causes of morbidity and mortality in developed countries, are occurring more frequently in developing countries. Therefore, diabetes, obesity and cardiovascular diseases are extensively studied. Nutrition is still a major problem in developing countries and widely studied by the scientists of the Institute in Africa and Southeast Asia. The research concerns public health and metabolism, the assessment of needs and the availability of macro- and micronutrients, in order to improve the care provided to populations. Lastly, environmental and health concerns are becoming increasingly important in cross-disciplinary actions and collaborations with many scientists from universities and research institutions in France and other partner (developed or developing) countries. excellence in research • iMproving tHe HeAltH of populAtions in developing Countries a natural alternative to antibiotics in the poultry industry fully ingested by the animals. Scientists could thus identify the plant extracts capable of stimulating chicken growth. These properties were confirmed in a second stage at pilot scale, in partnership with a company. The researchers showed that the effect of this plant-based food supplement was comparable to that of commercially used antibiotics. Furthermore, the selected plant and its active agent are abundant in tropical regions. The Peruvian poultry industry produces 40 million chickens per month. This promising discovery could also help reduce the use of antibiotics in industrial poultry farms and limit the outbreak of resistant bacteria, which are dangerous for animals and humans alike. It is the subject of a filed international patent and the project partners hope to license the patent to manufacturers capable of producing the substance that will become part of the feed ration for poultry. While the use of antibiotics as growth promoters for commercial poultry has been prohibited in Europe and Japan for several years, they are still used in the Americas. However, this practice could foster the outbreak of resistant bacteria capable of infecting humans. Ongoing research could provide an alternative to these practices. > Medicinal plants on the market in Iquitos / Peru peru “ partner Rosario Rojas assistant director of the LAVI international joint research unit, lecturer at Cayetano Heredia University in Peru. Each partner in this project contributed complementary scientific expertise. For the first time ever, my university launched a collaborative project and negotiations with a major company. We were able to benefit from IRD’s experience in the area. This work will enable Peru to develop a useful product for the country’s economic development based on its biodiversity.” contact Michel Sauvain – PHARMA-DEV Joint Research Unit (IRD-Université Toulouse III) michel.sauvain@ird.fr Resource: pCt patent no. 1662/2012 > Intensive chicken farming / Peru M odern animal production systems use antibiotics and other antimicrobials in disease prevention and treatment. Since the 1950s, some specialised farmers have also used antibiotics to stimulate animal growth. Thus, they achieve better weight gain, which in turn enables them to speed up the marketing of their production. However, the intensive and repeated use of antibiotics leads to the development of resistance, especially in certain bacteria of the digestive tract, which could infect humans. This resistance limits treatment options, delays healing and increases the associated costs. IRD researchers and their partners in Peru are working on Andean and Amazonian medicinal plants to identify the molecules or molecular groups with strong pharmacological properties. They have studied the possibility of using aromatic plants or those used in conventional medicine as an alternative to growth-promoting antibiotics in commercial poultry breeding. Thirteen plant extracts were thus selected and administered to chickens throughout their growth. Excepting one of these extracts, they were tolerated well and the dose levels were AnnuAl report 2012 • IRD page 33 excellence in research • iMproving tHe HeAltH of populAtions in developing Countries towards the elimination of sleeping sickness Human African Trypanosomiasis is one of the ten neglected tropical diseases targeted by the London Declaration of 2012 which, based on the roadmap established by the World Health Organisation, commits the international community to eradicating these pathologies by 2020. The ongoing research, in particular in Guinea, will eventually provide new tools to achieve this objective of elimination. partner burkina faso “ Jean-Baptiste Rayaisse Entomologist at CIRDES and coordinator of JEAI ECOVECTRYP – Burkina Faso. Our collaboration with IRD, which operates in several countries, has enabled us to forge subregional partnerships. We have also benefited from technology transfer facilities. Thanks to this work, CIRDES (the international centre of research and development of the livestock sub-humid zone) was designated a WHO collaborative centre in the battle against sleeping sickness. Furthermore, a network of researchers was established around JEAI ECOVECTRYP, which facilitates collaboration on cross-cutting subject areas at the subregional level, in particular with Guinea and Côte d’Ivoire.” contact Philippe Solano – INTERTRYP Joint Research Unit (Cirad-IRD) philippe.solano@ird.fr Resource : PLOS Neglected tropical diseases page 34 S leeping sickness, or Human African Trypanosomiasis (HAT), is caused by a protozoan parasite, the trypanosome Trypanosoma brucei gambiense. The latter is transmitted through a vector insect, the tsetse fly. To date, there is no vaccine, preventive treatment against HAT, or any repellent to ward off the vector. The treatments, based on already existing molecules, are difficult to administer and sometimes toxic. Therefore, IRD researchers and their partners in West Africa monitored infected subjects refusing the treatment over 15 years. They noted the ability of some patients to control the level of parasites in their blood, just like the trypanotolerance phenomenon described in certain farm animals. Other patients are seropositive, i.e. they have specific antibodies, but their blood shows no parasites. These subjects could carry a latent infection. Until now, however, the fight against HAT has been based purely on a screening and treatment strategy. Thus, only subjects with trypanosomes as revealed through microscopy are treated. Therefore, seropositive patients who are not found to have parasites are not treated, although they could potentially transmit the disease. This work suggests that the pathology will be eliminated through the consideration of factors other than the screening of parasites in the blood in order to implement treatment. It also IRD • AnnuAl report 2012 > Tsetse fly trap installation / Guinea opens up new research avenues to better understand the genetic and immune factors enabling certain patients to tolerate the trypanosome infection where others die as a result. In a complementary manner, an epidemiological study conducted in the Boffa prefecture in Guinea reveals the importance of the fight against the tsetse fly and its complementary role in the screening and treatment strategy. The struggle for vector control, based on trapping the tsetse fly, interrupts the parasitic cycle and represents the only currently available means of prevention to keep humans from suffering an infectious bite. Scientists have created a map of populations, cattle, tsetse flies and trypanosomes in the area. They showed that the high mobility of populations in Boffa and their activities in the mangrove forest increase contact with the tsetse fly and limit the effectiveness of medical supervision. Under these conditions, screening and treatment alone prove to be insufficient when not combined with the setting of tsetse fly traps. These findings have been taken into consideration by the international community and the WHO, which recommends incorporating the struggle for vector control and the monitoring of seropositive subjects into strategies for eliminating sleeping sickness. excellence in research • iMproving tHe HeAltH of populAtions in developing Countries anewapproach tovaccine manufacturing Several emerging diseases are caused by RNA viruses transmitted by arthropods. The numerous Dengue, Rift Valley fever and Chikungunya epidemics have significantly affected the health of populations over the last few decades, highlighting the importance of better understanding the functioning and evolution of these viruses in order to quickly find new treatment options or vaccines. partner australia Prof. Edward C. Holmes University of Sydney. “ This collaborative project with IRD has proven to be very interesting and, in my opinion, two of our observations will have a major impact. On the one hand, genomic re-encoding is a safe and effective way to develop a vaccine for the Chikungunya virus and could be adapted to other similar viruses. On the other hand, this work provided us with information on the evolution of viruses: they were unable to restore their ability to replicate by correcting the mutations introduced by genomic re-encoding, and tried to do so (in a very incomplete manner) by developing new mutations which change viral proteins.” A ntiviral vaccines are an essential component of the international public health policy and have considerable health benefits, in particular for children: it is estimated that more than 2-3 million deaths per year are prevented through vaccination. The most effective and least expensive are so-called “live attenuated” vaccines. Infectious agents are multiplied in a laboratory until they lose their pathogenic potential. The strains obtained are then unable to fully develop the disease, but retain their ability to produce an immune reaction. These vaccines are usually more effective than those comprised of inactivated infectious agents and provide longlasting protection after fewer injections. They are therefore particularly well suited to populations in resource-poor countries. However, preparing these vaccines is no easy task. The attenuation of the virulence of vaccine strains is a complex phenomenon which is particularly difficult to control. Therefore, many viral pathologies have no vaccine and, should a new virus emerge (a repeated phenomenon over the last few decades), it is difficult to attempt to quickly produce such vaccines. IRD researchers and their partners have developed an innovative method to manufacture attenuated viruses, representing potential candidate vaccines. As a model, they used the Chikungunya virus transmitted by Aedes aegypti and > 3D structure of the chikungunya virus > Mosquito vector of chikungunya Aedes albopictus mosquitoes and which has infected several million human beings over the last few decades. This virus has a genome composed of an RNA molecule. This type of virus has the peculiarity of presenting very high mutation rates. Through genomic re-encoding, scientists have introduced mutations into the virus genome without changing the viral proteins, and obtained artificially recomposed viral genomes associated with reduced virulence. This method, which can be applied to several viral pathogens, can be implemented within a very short timeframe and, furthermore, facilitates the production of attenuated viruses. This could lead to a dramatic change in the current approach to manufacturing antiviral vaccines. This work represents an innovative avenue for the production of new-generation attenuated viral vaccines. > Vaccination contacts Xavier de Lamballerie and Antoine Nougairède EPV Joint Research Unit (Aix-Marseille University-EHESP-EFS-IRD) xavier.de-lamballerie@univ-amu.fr / antoine.nougairede@univ-amu.fr Resource: PLOS Pathogens AnnuAl report 2012 • IRD page 35 37 38 39 waters and territories of the deltas in east africa international dissemination of knowledge: challenges in developing countries indigenous peoples and environmental issues 232 researchers, engineers and technicians 275 articles 58 books 217 books chapters Contact : dso@ird.fr page 36 IRD • AnnuAl report 2012 3 understanding the evolution of develoPing societies The social science research conducted aims to analyse the human and social factors at the heart of the development of developing countries. Anthropologists, economists, geographers, demographers, historians, linguists, sociologists, political scientists and archaeologists structure their studies around three major subject areas which are of crucial importance for developing countries: development and governance, vulnerability, inequality and growth; social and spatial dynamics and boundaries. This work, conducted at local, transnational and comparative levels, enables a dialogue to be established with all players in the society, be they decision-makers or citizens. It aims to understand the foundations upon which developing societies are built and the transformations which characterise them today, in particular through the study of migration, heritage preservation, religious movements, social inequality and the various forms of vulnerability faced by these societies. This research is open to interdisciplinary cooperation. excellence in research • understAnding tHe evolution of developing soCieties waters and territories of the deltas in east africa Deltas are considered to be some of the world’s most productive environments and are home to rich biodiversity. They often fall victim to flooding, while their natural resources have historically been exploited by multiple users. However, the construction of large dams upstream combined with intensive agriculture is changing the functioning of these wetlands, with negative consequences for local economies and increased tension between communities. > Well water analysis in the village of Ozi / Kenya partner kenya Dorothy Wanja Nyingi Coordinator of the KENWEB Young Team Associated to IRD, Kenya. “ The KENWEB1 research group was funded by IRD’s JEAI (Young Teams Associated to IRD) programme. This team fills a long-standing void between researchers and decision-makers regarding the management of the Kenyan wetlands. The fact that the team is comprised of a network of researchers brought together through mutual trust and working together in the long term and not within the strict framework of a specific project enables us to apply inventive research methods and to devote time to mentoring students.” 1. Kenyan Wetland Biodiversity Research Group. contact Stéphanie Duvail – PALOC Joint Research Unit (IRD-French national museum of natural history) stephanie.duvail@ird.fr Resources: Hydrological Sciences Journal, Water Alternatives T he Tana and Rufiji River deltas are unknown parts of the East African coast and often presented as vacant areas to be developed. Far from being underutilized lands, these are on the contrary real “cultural landscapes”: a patchwork of forests and flood plains shaped through centuries of intensive use for the purposes of rice-growing, cattle breeding, fishing, gathering and more according to the rhythms of the river floods. The deltas are also home to great biological diversity and provide a unique haven for several endemic species. IRD researchers and their partners from the young KENWEB team are working in an effort to better understand the functioning of these ecosystems and the practices of the local communities which rely on them. They have modelled the hydrological functioning of these deltas, studied the availability of natural resources and described the practices of local users. Their findings show that the seasonal flooding patterns of the Tana and Rufiji rivers play an important role in the lives of populations in the East African deltas. In Kenya, decreased river flows and rainfall, in addition to the pressure created by the hydroelectric and industrial farming industries, compel populations to develop survival strategies resulting in an excessive and conflictual > Tana River Delta / Kenya concentration of farmers, breeders and fishermen in the few remaining production areas. The combined French, Kenyan and Tanzanian research team decided to implement a participative research approach involving local populations in determining research goals, throughout data collection and by jointly analysing the findings. Hydro-climatic, halieutic, agricultural and food monitoring has thus been carried out in close collaboration with the communities, which also created a map of the territory. This research method in particular allows local knowledge sharing and fosters discussions through results workshops organised on the ground. The data collected has been provided to consultancies responsible for measuring the impact of the dams upstream of the deltas, in addition to Ministries, NGOs and local populations in order to initiate a dialogue with these various players concerning the future of the deltas. This multidisciplinary collaboration has in particular influenced the classification of the Tana delta as a Ramsar site, based on an international convention for the sustainable management of wetlands. AnnuAl report 2012 • IRD page 37 excellence in research • understAnding tHe evolution of developing soCieties international disseminationof knowledge: challengesin developing countries In Mexico, the issues of student and professional mobility, in addition to the outcomes of governmental and corporate programmes aimed at fostering international exchanges, are receiving growing interest from researchers. However, the knowledge produced remains insufficient and we are still largely unaware of the effects of this new mobility on the scientific dynamics of the countries concerned. partner mexico Sylvie Didou Researcher at DIE/CINVESTAV, OBSMAC programme coordinator. “ The five-year collaboration between CINVESTAV and IRD has encouraged discussions on subject areas given little coverage in the educational research agenda in Mexico: incoming and outgoing scientific mobility, public training policies abroad, return migration, student exchanges and academic cooperation. Two international conferences, held in 2009 and 2012, involved Latin American and European partners in our discussions and diversified networks, approaches and expertise.” S cience is becoming a world system; researchers and students no longer think twice about leaving their country of origin. Several host programmes have been established to attract qualified migrants. Thus, in 2009, nearly 196,000 students from Latin America and the Caribbean studied abroad, primarily in North America and Europe. However, the occurrence of these exchanges remains relatively unknown. IRD researchers, in collaboration with a team from CINVESTAV1 and supported by IESALC/ UNESCO2, have implemented observation systems such as the Mexican observatory on academic and scientific mobility, and the international observatory on academic mobility between developing and developed countries, which analyse the development and impact of the movement of people and knowledge between developing and developed countries. How are scientific methods transmitted from one community to another? How does the migration of researchers and students encourage the dissemination of knowledge, which knowledge in particular, and why? How does imported knowledge change the way of dealing with scientific problems? By studying the dissemination of knowledge based on historiographical and sociological approaches, in particular through the assessment of public policies, IRD researchers and their partners in Mexico are trying to provide answers to these questions. In particular, they are studying how knowledge production sites such as laboratories and study areas are changing through the movement of “bearers of knowledge” such as students and researchers. Thus, this work enables a better understanding of the development of the fields of research and higher learning in the country. The geographic mobility of researchers is no longer the only method of knowledge dissemination. Knowledge is not only disseminated in physical space. The real world – that of offices and laboratories – has expanded over the last ten to fifteen years to include a virtual world: that of machine-based communication. Thus, major international laboratories are able to bring together researchers from a variety of countries around a single programme and to start projects conducted remotely by teams that only meet very rarely and for very short periods of time. The COSINUS3 project endeavours to observe the virtual communities or collectives which make up the researchers’ social and professional environment. It focuses on the potential for international and interdisciplinary collaboration specific to these structures. The research conducted as part of this project will provide assistance to the development of public policies intended to foster national cooperation, make heavy equipment cost effective, boost a locally underdeveloped sector and even enable the processing of large volumes of observational data. 1. Centro de Investigación y de Estudios Avanzados del Instituto Politécnico Nacional. 2. Instituto Internacional de la UNESCO para la Educación Superior en América Latina y el Caribe. 3. International scientific cooperation in the South-North digital world. training centres for mexican researchers during the 2000-2010 decade. Cornu J.F. (IRD, UMR 207 BOREA) Gérard E. (IRD, UMR 196, CEPED) Source: SNI 2010 contacts Étienne Gérard and Pascal Renaud CEPED Joint Research Unit (Ined-IRD-Université Paris Descartes) etienne.gerard@ird.fr / pascal.renaud@ird.fr Resources: international knowledge dissemination conference 9-11 october 2012 – Mexico number of doctorates 5,000 1,000 250 page 38 IRD • AnnuAl report 2012 0 5,000 10,000 km excellence in research • understAnding tHe evolution of developing soCieties indigenous peoples and environmental issues The lives of indigenous peoples, traditional societies and local communities are closely tied to the natural environments on which they depend. The custodians of biological and cultural diversity, they possess ancestral knowledge and know-how which could provide invaluable insight into global change. More often than not, however, these peoples are threatened, deprived from free access to their natural resources and politically marginalised. partner cameroon Shey Wilfred Mbunda I ndigenous peoples, traditional societies and local communities account for more than 350 million people in over 70 countries in the world and represent about 5,000 languages and cultures. The guardians of a unique spiritual, cultural and biological heritage, they see themselves as an integral part of the environment which they have exploited sustainably for thousands of years. Thanks to the combined efforts of researchers and local communities, UNESCO has recognised the vulnerability of these peoples and established biosphere reserves1 in order to reconcile the protection of natural and cultural diversity with economic and social development. IRD ethnobiologists are aware of the importance of this naturalistic expertise and knowledge. They are working in close collaboration with these peoples, making them true research partners. Their studies consist of viewing biodiversity and major environmental challenges through the prism of a culture. In particular, researchers have analysed ancient beekeeping practices as part of the Sentimiel programme. Bees are pollinators which help maintain 65% of biodiversity. However, they are disappearing under the combined effect of pollution, urban development, the industrial production of honey and climate change. Researchers have studied the knowledge and expertise of honey hunters in developing countries, their views on the changes underway and their adaptive strategies. As such, they have listed a great variety of bee species and traditional harvesting methods, in addition to showing that honey hunters have very specific knowledge on the behaviour of bees. By observing these true custodians of the environment, forest peoples are informed of changes underway and can adapt their practices to protect natural resources. Furthermore, this work has demonstrated the strong interaction between humans and bees and the parallel between the disappearance of these insects and that of ancestral beekeeping practices. In order to increase public awareness of the considerable cultural contribution made by these peoples in terms of sustainable development, IRD researchers and the International Ethnobiology Society have organised a conference promoting discussions between representatives of indigenous peoples from all five continents, scientists, academics and the general public. This exceptional forum provided an opportunity to prove the crucial role played by cultural diversity in biological diversity. Through an approach based on science, ethics and citizenship, this work endeavours to better address the knowledge of indigenous peoples and local communities in order to enrich the policies, decisions and actions implemented to ensure an equitable and sustainable future for generations to come. 1. The Man and the Biosphere (MAB) Programme. Beekeeper of Mount Oku – Cameroon. > Traditional honey harvesting / Kenya “ The farmer in me was greatly honoured to be invited by IRD to attend the Montpellier Conference and to be able to contribute to the Sentimiel project. The goal of supporting traditional honey production helps protect the environment and support the local farming economy. We have now begun to mobilise farmers and to ensure their involvement in the ideals of the Sentimiel project.” contact Edmond Dounias – CEFE Joint Research Unit (CNRS, Montpellier Universities 1,2 and 3, Sup Agro, Cirad, IRD and Inra). edmond.dounias@ird.fr Resources: 13th conference of the international ethnobiology society Cultural and biological diversity 20-25 May 2012 - Montpellier AnnuAl report 2012 • IRD page 39