Centre Hospitalier Universitaire de Cocody

Regional climate models are important research tools available to scientists around the world, including in economically developing nations (EDNs). The Earth Systems Physics (ESP) group of the Abdus Salam International Centre for Theoretical Physics (ICTP) maintains and distributes a state-of-the-science regional climate model called the ICTP Regional Climate Model version 3 (RegCM3), which is currently being used by a large research community for a diverse range of climate-related studies. The RegCM3 is the central, but not only, tool of the ICTP-maintained Regional Climate Research Network (RegCNET) aimed at creating south–south and north–south scientific interactions on the topic of climate and associated impacts research and modeling. In this paper, RegCNET, RegCM3, and illustrative results from RegCM3 benchmark simulations applied over south Asia, Africa, and South America are presented. It is shown that RegCM3 performs reasonably well over these regions and is therefore useful for climate studies in EDNs.

The molecular variability of cassava geminiviruses occurring in Uganda was investigated in this study. Infected cassava plants and whiteflies were collected from cassava plantings in different geographical areas of the country and PCR was used for molecular characterization of the viruses. Two complete sequences of DNA-A and -B from African cassava mosaic virus (ACMV), two DNA-A sequences from East African cassava mosaic virus (EACMV), two DNA-B sequences of EACMV and the partial DNA-A nucleotide sequence of a new virus strain isolated in Uganda, EACMV-UG3, are reported here. Analysis of naturally infected cassava plants showed various assortments of DNA-A and DNA-B of the Ugandan viruses, suggesting the occurrence of natural inter- and intraspecies pseudorecombinations and a pattern of cassava mosaic disease (CMD) more complex than previously reported. EACMV-UG2 DNA-A, which contains a recombinant fragment between ACMV and EACMV-UG1 in the coat protein gene that resembles virus from Tanzania, was widespread in the country and always associated with EACMV-UG3 DNA-B, which probably resulted from another natural recombination event. Mixed infections of ACMV-UG and EACMV-UG in cassava and whiteflies were detected in most of the regions where both viruses occurred. These mixed-infected samples always showed extremely severe CMD symptoms, suggesting a synergistic interaction between ACMV-UG and EACMV-UG2. The first demonstration is provided of infectivity of EACMV clones to cassava, proving conclusively that the pseudorecombinant EACMV-UG2 DNA-A+EACMV-UG3 DNA-B is a causal agent of CMD in Uganda.

Primate vocal behavior is often considered irrelevant in modeling human language evolution, mainly because of the caller's limited vocal control and apparent lack of intentional signaling. Here, we present the results of a long-term study on Campbell's monkeys, which has revealed an unrivaled degree of vocal complexity. Adult males produced six different loud call types, which they combined into various sequences in highly context-specific ways. We found stereotyped sequences that were strongly associated with cohesion and travel, falling trees, neighboring groups, nonpredatory animals, unspecific predatory threat, and specific predator classes. Within the responses to predators, we found that crowned eagles triggered four and leopards three different sequences, depending on how the caller learned about their presence. Callers followed a number of principles when concatenating sequences, such as nonrandom transition probabilities of call types, addition of specific calls into an existing sequence to form a different one, or recombination of two sequences to form a third one. We conclude that these primates have overcome some of the constraints of limited vocal control by combinatorial organization. As the different sequences were so tightly linked to specific external events, the Campbell's monkey call system may be the most complex example of 'proto-syntax' in animal communication known to date.

Stem cuttings were collected in Cameroon from cassava plants displaying cassava mosaic disease (CMD) symptoms. The nature of the viruses present was determined by using the PCR with primers specific for the coat protein (CP) genes of African cassava mosaic virus (ACMV) and East African cassava mosaic virus (EACMV). All samples were infected by ACMV and eight of the 50 samples were infected by both ACMV and an EACMV-like virus. The complete nucleotide sequences of DNA-A and -B of representative ACMV and EACMV-like viruses were determined. The DNA-A component of the EACMV-like virus contained evidence of recombination in the AC2-AC3 region and DNA-B also contained evidence of recombination in BC1. However, both components retained gene arrangements typical of bipartite begomoviruses. When Nicotiana benthamiana plants were doubly inoculated with these Cameroon isolates of ACMV and EACMV (ACMV/CM, EACMV/CM) by using sap from cassava plants or infectious clones, the symptoms were more severe than for plants inoculated with either virus alone. Southern blot analysis of viral DNAs from infected plants showed that there were significantly higher levels of accumulation of both ACMV/CM components and, to a lesser extent, of EACMV/CM components in mixed-infected plants than in singly infected plants. These results strongly suggest the occurrence of a synergistic interaction between the two viruses.

Phase I of the International Study of Asthma and Allergies in Childhood has provided valuable information regarding international prevalence patterns and potential risk factors in the development of asthma, allergic rhinoconjunctivitis and eczema. However, in Phase I, only six African countries were involved (Algeria, Tunisia, Morocco, Kenya, South Africa and Ethiopia). Phase III, conducted 5–6 years later, enrolled 22 centres in 16 countries including the majority of the centres involved in Phase I and new centres in Morocco, Tunisia, Democratic Republic of Congo, Togo, Sudan, Cameroon, Gabon, Reunion Island and South Africa. There were considerable variations between the various centres of Africa in the prevalence of the main symptoms of the three conditions: wheeze (4.0–21.5%), allergic rhinoconjunctivitis (7.2–27.3%) and eczema (4.7–23.0%). There was a large variation both between countries and between centres in the same country. Several centres, including Cape Town (20.3%), Polokwane (18.0%), Reunion Island (21.5%), Brazzaville (19.9%), Nairobi (18.0%), Urban Ivory Coast (19.3%) and Conakry (18.6%) showed relatively high asthma symptom prevalences, similar to those in western Europe. There were also a number of centres showing high symptom prevalences for allergic rhinoconjunctivitis (Cape Town, Reunion Island, Brazzaville, Eldoret, Urban Ivory Coast, Conakry, Casablanca, Wilays of Algiers, Sousse and Eldoret) and eczema (Brazzaville, Eldoret, Addis Ababa, Urban Ivory Coast, Conakry, Marrakech and Casablanca).

Human language has evolved on a biological substrate with phylogenetic roots deep in the primate lineage. Here, we describe a functional analogy to a common morphological process in human speech, affixation, in the alarm calls of free-ranging adult Campbell's monkeys (Cercopithecus campbelli campbelli). We found that male alarm calls are composed of an acoustically variable stem, which can be followed by an acoustically invariable suffix. Using long-term observations and predator simulation experiments, we show that suffixation in this species functions to broaden the calls' meaning by transforming a highly specific eagle alarm to a general arboreal disturbance call or by transforming a highly specific leopard alarm call to a general alert call. We concluded that, when referring to specific external events, non-human primates can generate meaningful acoustic variation during call production that is functionally equivalent to suffixation in human language.

Probiotic encapsulation technology (PET) has the potential to protect microorgansisms and to deliver them into the gut. Because of the promising preclinical and clinical results, probiotics have been incorporated into a range of products. However, there are still many challenges to overcome with respect to the microencapsulation process and the conditions prevailing in the gut. This paper reviews the methodological approach of probiotics encapsulation including biomaterials selection, choice of appropriate technology, in vitro release studies of encapsulated probiotics, and highlights the challenges to be overcome in this area.

The Klato-Katz method is widely used for diagnosing helminth infections in epidemiological surveys, but is known to have a low sensitivity. In the case of Schistosoma mansoni, statistical methods have been developed to compensate for the poor sensitivity, but the same is not true of any other helminth parasite, or infections with multiple-helminth species. We screened 101 schoolchildren from a rural area of Côte d'Ivoire over 5 consecutive days and made 5 Kato-Katz readings from each stool specimen. We estimated single and dual-species infections with S. mansoni and hookworm based on raw egg count data and after developing a latent-class model. The cumulative prevalence of co-infections was estimated at 9.9% after reading slides on the first day, and 57.0% after reading all 25 slides per person. The latent class model yielded a co-infection prevalence estimate of 79.6%, with marginal prevalence estimates for hookworm and S. mansoni infections of 83.9% and 91.6% respectively. The sensitivities of a single Kato-Katz thick smear for detection of S. mansoni alone, hookworms alone, or S. mansoni plus hookworms were 22.4%, 8.0% and 17.7%, respectively. In the current setting this could be attributable to low infection intensities of both parasites, combined with intra-specimen and day-to-day variation in egg output. If confirmed in other settings, these findings have implications for estimating the prevalence of multiple species helminth infections, and hence the design and implementation of efficacious and cost-effective control programmes.

We investigate the climatic impact of shortwave and longwave radiative forcing of Saharan dust on the West African monsoon and Sahel precipitation using a regional climate model (RCM) interactively coupled to a dust model and running for the period 1996–2006. Two competing effects are found. First a reduction of monsoon intensity in the lower troposphere induced by the dust surface cooling causes a reduction of precipitation, and second an ‘elevated heat pump effect’ in the higher troposphere induced by the dust diabatic warming causes an increase of precipitation. In the standard model configuration, the net impact of these effects is a reduction of precipitation over most of the Sahelian region (by about 8% on average) except over a Northern Sahel ‐ Southern Sahara band, where precipitation increases. These patterns are very sensitive to the dust absorbing properties, which modulate the intensity of the patterns and the boundary between enhanced and decreased precipitation areas. Finally we show that taking into account dust in the RCM could reduce the model bias compared to available observations.

Compared to malaria, tuberculosis and HIV/AIDS, schistosomiasis remains a truly neglected tropical disease. Schistosomiasis, perhaps more than any other disease, is entrenched in prevailing social-ecological systems, since transmission is governed by human behaviour (e.g. open defecation and patterns of unprotected surface water contacts) and ecological features (e.g. living in close proximity to suitable freshwater bodies in which intermediate host snails proliferate). Moreover, schistosomiasis is intimately linked with poverty and the disease has spread to previously non-endemic areas as a result of demographic, ecological and engineering transformations. Importantly though, thanks to increased advocacy there is growing awareness, financial and technical support to control and eventually eliminate schistosomiasis as a public health problem at local, regional and global scales. The purpose of this review is to highlight recent progress made in innovation, validation and application of new tools and strategies for research and integrated control of schistosomiasis. First, we explain that schistosomiasis is deeply embedded in social-ecological systems and explore linkages with poverty. We then summarize and challenge global statistics, risk maps and burden estimates of human schistosomiasis. Discovery and development research pertaining to novel diagnostics and drugs forms the centrepiece of our review. We discuss unresolved issues and emerging opportunities for integrated and sustainable control of schistosomiasis and conclude with a series of research needs.

There is evidence that faecal egg counts of Schistosoma mansoni vary considerably from day to day, which results in poor sensitivity of single stool readings. Intra-specimen variation of S. mansoni egg counts may also be considerable, but has previously been considered as the less important component. We quantified the relative contribution of these two sources of variation among 96 schoolchildren from an area in Cĵte d'Ivoire highly endemic for S. mansoni. Stool specimens were collected over 5 consecutive days, and 5 egg-counts were made in each specimen by the Kato-Katz technique. The point prevalence of the first sample was 42.7% and the cumulative prevalence after the maximum sampling effort was 88.5%. Using generalized linear mixed models we found that the presence of S. mansoni eggs in a stool sample varied much more between days than within specimens, indicating that stool sample examination over multiple days is required for accurate prevalence estimates. However, using the same approach, we found that among infected children intra-specimen variation in egg counts was 4.3 times higher than day-to-day variation. After praziquantel administration, day-to-day variation was more important than before, since most infections were very light and thus likely to be missed altogether by stool examination on a single day. We conclude that diagnostic sensitivity in high transmission areas is maximized by making several stool readings on several days, but examining 1 stool specimen several times can make reasonable estimates of infection intensity.

We use space‐based observations of NO 2 columns from the Global Ozone Monitoring Experiment (GOME) to map the spatial and seasonal variations of NO x emissions over Africa during 2000. The GOME observations show not only enhanced tropospheric NO 2 columns from biomass burning during the dry season but also comparable enhancements from soil emissions during the rainy season over the Sahel. These soil emissions occur in strong pulses lasting 1–3 weeks following the onset of rain, and affect 3 million km 2 of semiarid sub‐Saharan savanna. Surface observations of NO 2 from the International Global Atmospheric Chemistry (IGAC)/Deposition of Biochemically Important Trace Species (DEBITS)/Africa (IDAF) network over West Africa provide further evidence for a strong role for microbial soil sources. By combining inverse modeling of GOME NO 2 columns with space‐based observations of fires, we estimate that soils contribute 3.3 ± 1.8 TgN/year, similar to the biomass burning source (3.8 ± 2.1 TgN/year), and thus account for 40% of surface NO x emissions over Africa. Extrapolating to all the tropics, we estimate a 7.3 TgN/year biogenic soil source, which is a factor of 2 larger compared to model‐based inventories but agrees with observation‐based inventories. These large soil NO x emissions are likely to significantly contribute to the ozone enhancement originating from tropical Africa.

Nitric oxide (NO) is an essential regulatory molecule in plant immunity in synergy with reactive oxygen species (ROS). However, little is known about the role of NO in disease resistance to necrotrophic pathogens. NO and oxidative bursts were induced during necrotrophic fungal pathogen Botrytis cinerea and Nicotiana benthamiana compatible interaction. Histochemical analyses showed that both NO and ROS were produced in adjacent cells of invaded areas in N. benthamiana leaves. Activation of salicylic acid–induced protein kinase, which regulates the radical burst, and several defense-related genes were induced after inoculation of B. cinerea. Loss-of-function analyses using inhibitors and virus-induced gene silencing were done to investigate the role of the radical burst in pathogenesis. We showed that NO plays a pivotal role in basal defense against B. cinerea and PR-1 gene expression in N. benthamiana. By contrast, ROS function has a negative role in resistance or has a positive role in expansion of disease lesions during B. cinerea–N. benthamiana interaction.

The African continent is portrayed in development texts as experiencing environmental crises of staggering proportions. Despite a lack of reliable data, the World Bank considers environmental degradation to be so widespread that the ‘business’ of environmental planning and regulation is now seen as a global affair. It currently requires low-income countries receiving its financial assistance to develop National Environmental Action Plans (NEAPs) which, in assembly-line fashion, are being produced according to a blueprint. Taking the West African case study of Côte d'Ivoire, this paper argues that the planning process, specifically the identification of environmental problems, is based on a poor understanding of the nature and direction of environmental change. We confront this data problem by contrasting the image of a deforested savanna landscape found in the Côte d'Ivoire NEAP with the more wooded landscape experienced by farmers and herders and confirmed by our analysis of aerial photographs. Our second objective is to address the policy implications of two geographical issues rising from this paper: the disjointed scale problem between local/regional environmental-change patterns and global environmental discourses, and the human-environmental consequences of ignoring actual versus imagined environmental problems. A third goal is to contribute to the growing convergence in cultural and political ecology around the use of multiple research methods to explain environmental-change dynamics. Our discussion of environmental change is informed by intensive data collection in two rural communities in the Korhogo region of northern Côte d'Ivoire. Research methods included focus-group discussions and household surveys to record local perceptions of environmental change. Aerial photo analysis, GIS mapping, and vegetation transects were used to interpret land-cover changes. Finally, interviews with individuals involved in the NEAP process in the Côte d'Ivoire government, World Bank, and NGOs illuminated the received ideas and institutional interests of various players in environmental planning.

HIV/AIDS not only represents the most severe epidemic in modern times, but also the greatest public health challenge in history. The response of the scientific community has been impressive and in just a few years, turned an inevitably fatal disease into a chronic manageable although not yet curable condition. The development of antiretroviral therapy is not only the history of scientific advancements: it is the result of the passionate 'alliance' towards a common goal between researchers, doctors and nurses, pharmaceutical industries, regulators, public health officials and the community of HIV-infected patients, which is rather unique in the history of medicine. In addition, the rapid and progressive development of antiretroviral therapy has not only proven to be life-saving for many millions but has been instrumental in unveiling the inequities in access to health between rich and poor countries of the world. Optimal benefits indeed, are not accessible to all people living with HIV, with challenges to coverage and sustainability in low and middle income countries. This paper will review the progress made, starting from the initial despairing times, till the current battle towards universal access to treatment and care for all people living with HIV.

We investigate the effect of the shortwave radiative forcing of Saharan dust on the West African monsoon with a regional climate model interactively coupled to a dust model. Toward this purpose we intercompare sets of 38 summer monsoon season simulations (1969–2006) with and without dust effects over a domain encompassing most of the African continent and adjacent regions. We find that the main effect of the dust radiative shortwave forcing is to reduce precipitation over the Sahel region. This is in response to cooling over the Sahara, which decreases the meridional gradient of moist static energy and results in a weakening of the monsoon energy pump. The dust effects also cause a strengthening of the southern branch of the African Easterly Jet and a weakening of Tropical Easterly Jet. Over the Sahel the dust forcing causes climate response patterns that are similar to those found during dry years over the Sahel, which suggests that Saharan dust feedbacks might have a role in maintaining drought events over the region. Overall, the inclusion of dust also tends to improve the model simulation of the West African monsoon, as well as African and Tropical Easterly jets. This work focuses on climatic feedback associated to shortwave radiation forcing and should be further completed by the study of dust effect on long‐wave radiation.

Abstract. African biomass burning emission inventories for gaseous and particulate species have been constructed at a resolution of 1 km by 1km with daily coverage for the 2000–2007 period. These inventories are higher than the GFED2 inventories, which are currently widely in use. Evaluation specifically focusing on combustion aerosol has been carried out with the ORISAM-TM4 global chemistry transport model which includes a detailed aerosol module. This paper compares modeled results with measurements of surface BC concentrations and scattering coefficients from the AMMA Enhanced Observations period, aerosol optical depths and single scattering albedo from AERONET sunphotometers, LIDAR vertical distributions of extinction coefficients as well as satellite data. Aerosol seasonal and interannual evolutions over the 2004–2007 period observed at regional scale and more specifically at the Djougou (Benin) and Banizoumbou (Niger) AMMA/IDAF sites are well reproduced by our global model, indicating that our biomass burning emission inventory appears reasonable.

Few developing countries have established laboratory quality standards that are affordable and easy to implement and monitor. To address this challenge, the World Health Organization Regional Office for Africa (WHO AFRO) established a stepwise approach, using a 0- to 5-star scale, to the recognition of evolving fulfillment of the ISO 15189 standard rather than pass-fail grading. Laboratories that fail to achieve an assessment score of at least 55% will not be awarded a star ranking. Laboratories that achieve 95% or more will receive a 5-star rating. This stepwise approach acknowledges to laboratories where they stand, supports them with a series of evaluations to use to demonstrate improvement, and recognizes and rewards their progress. WHO AFRO's accreditation process is not intended to replace established ISO 15189 accreditation schemes, but rather to provide an interim pathway to the realization of international laboratory standards. Laboratories that demonstrate outstanding performance in the WHO-AFRO process will be strongly encouraged to enroll in an established ISO 15189 accreditation scheme. We believe that the WHO-AFRO approach for laboratory accreditation is affordable, sustainable, effective, and scalable.

Abstract. In this paper we present the long term monitoring of ambient gaseous concentrations within the framework of the IDAF (IGAC-DEBITS-AFRICA) program. This study proposes for the first time an analysis of long-term inorganic gas concentrations (1998 to 2007) of SO2, NO2, HNO3, NH3 and O3, determined using passive samplers at seven remote sites in West and Central Africa. Sites are representative of several African ecosystems and are located along a transect from dry savannas-wet savannas-forests with sites at Banizoumbou (Niger), Katibougou and Agoufou (Mali), Djougou (Benin), Lamto (Cote d'Ivoire), Zoetele (Cameroon) and Bomassa (Congo). The strict control of measurement techniques as well as the validation and inter-comparison studies conducted with the IDAF passive samplers assure the quality and accuracy of the measurements. For each type of African ecosystem, the long term data series have been studied to document the levels of surface gaseous concentrations. The seasonal and interannual variability have also been analyzed as a function of emission source variations. We compared the measured West and Central African gas concentrations to results obtained in other parts of the world. Results show that the annual mean concentrations of NO2, NH3, HNO3 measured in dry savannas are higher than those measured in wet savannas and forests that have quite similar concentrations. Annual mean NO2 concentrations vary from 0.9±0.2 in forests to 2.4±0.4 ppb in the dry savannas, NH3 from 3.9±1.4 to 7.4±0.8 ppb and HNO3 from 0.2±0.1 to 0.5±0.2 ppb. Annual mean O3 and SO2 concentrations are lower for all ecosystems and range from 4.0±0.4 to 14.0±2.8 and from 0.3±0.1 to 1.0±0.2 ppb, respectively. A focus on the processes involved in gas emissions from dry savannas is presented in this work, providing explanations for the high concentrations of all gases measured at the three dry savannas sites. At these sites, seasonal concentrations of all gases are higher in the wet season. Conversely, concentrations are higher in the dry season in the wet savannas. In forested regions, we measure no significant difference between wet and dry seasons. This unique database of long term gases concentrations monitoring is available at: http://medias.obs-mip.fr/idaf/.

Differences in the state of health between rural and urban populations living in Africa have been described, yet only few studies analysed inequities within poor rural communities. We investigated disparities in parasitic infections, perceived ill health and access to formal health services among more than 4000 schoolchildren from 57 primary schools in a rural area of western Côte d'Ivoire, as measured by their socioeconomic status. In a first step, we carried out a cross-sectional parasitological survey. Stool specimens and finger prick blood samples were collected and processed with standardized, quality-controlled methods, for diagnosis of Schistosoma mansoni, soil-transmitted helminths, intestinal protozoa and Plasmodium. Then, a questionnaire survey was carried out for the appraisal of self-reported morbidity indicators, as well as housing characteristics and household assets ownership. Mean travel distance from each village to the nearest health care delivery structure was provided by the regional health authorities. Poorer schoolchildren showed a significantly higher infection prevalence of hookworm than better-off children. However, higher infection prevalences of intestinal protozoa (i.e. Blastocystis hominis, Endolimax nana and Iodamoeba butschlii) were found with increasing socioeconomic status. Significant negative associations were observed between socioeconomic status and light infection intensities with hookworm and S. mansoni, as well as with several self-reported morbidity indicators. The poorest school-attending children lived significantly further away from formal health services than their richer counterparts. Our study provides evidence for inequities among schoolchildren's parasitic infection status, perceived ill health and access to health care in a large rural part of Côte d'Ivoire. These findings call for more equity-balanced parasitic disease control interventions, which in turn might be an important strategy for poverty alleviation.