Genetic Structure, Linkage Disequilibrium and Signature of Selection in Sorghum: Lessons from Physically Anchored DArT Markers

Population structure, extent of linkage disequilibrium (LD) as well as signatures of selection were investigated in sorghum using a core sample representative of worldwide diversity. A total of 177 accessions were genotyped with 1122 informative physically anchored DArT markers. The properties of DArTs to describe sorghum genetic structure were compared to those of SSRs and of previously published RFLP markers. Model-based (STRUCTURE software) and Neighbor-Joining diversity analyses led to the identification of 6 groups and confirmed previous evolutionary hypotheses. Results were globally consistent between the different marker systems. However, DArTs appeared more robust in terms of data resolution and bayesian group assignment. Whole genome linkage disequilibrium as measured by mean r2 decreased from 0.18 (between 0 to 10 kb) to 0.03 (between 100 kb to 1 Mb), stabilizing at 0.03 after 1 Mb. Effects on LD estimations of sample size and genetic structure were tested using i. random sampling, ii. the Maximum Length SubTree algorithm (MLST), and iii. structure groups. Optimizing population composition by the MLST reduced the biases in small samples and seemed to be an efficient way of selecting samples to make the best use of LD as a genome mapping approach in structured populations. These results also suggested that more than 100,000 markers may be required to perform genome-wide association studies in collections covering worldwide sorghum diversity. Analysis of DArT markers differentiation between the identified genetic groups pointed out outlier loci potentially linked to genes controlling traits of interest, including disease resistance genes for which evidence of selection had already been reported. In addition, evidence of selection near a homologous locus of FAR1 concurred with sorghum phenotypic diversity for sensitivity to photoperiod

Inequities and their determinants in coverage of maternal health services in Burkina Faso

Background: Poor and marginalized segments of society often display the worst health status due to limited access to health enhancing interventions. It follows that in order to enhance the health status of entire populations, inequities in access to health care services need to be addressed as an inherent element of any effort targeting Universal Health Coverage. In line with this observation and the need to generate evidence on the equity status quo in sub-Saharan Africa, we assessed the magnitude of the inequities and their determinants in coverage of maternal health services in Burkina Faso. Methods: We assessed coverage for three basic maternal care services (at least four antenatal care visits, facility-based delivery, and at least one postnatal care visit) using data from a cross-sectional household survey including a total of 6655 mostly rural, poor women who had completed a pregnancy in the 24 months prior to the survey date. We assessed equity along the dimensions of household wealth, distance to the health facility, and literacy using both simple comparative measures and concentration indices. We also ran hierarchical random effects regression to confirm the presence or absence of inequities due to household wealth, distance, and literacy, while controlling for potential confounders. Results: Coverage of facility based delivery was high (89%), but suboptimal for at least four antenatal care visits (44%) and one postnatal care visit (53%). We detected inequities along the dimensions of household wealth, literacy and distance. Service coverage was higher among the least poor, those who were literate, and those living closer to a health facility. We detected a significant positive association between household wealth and all outcome variables, and a positive association between literacy and facility-based delivery. We detected a negative association between living farther away from the catchment facility and all outcome variables. Conclusion: Existing inequities in maternal health services in Burkina Faso are likely going to jeopardize the achievement of Universal Health Coverage. It is important that policy makers continue to strengthen and monitor the implementation of strategies that promote proportionate universalism and forge multi-sectoral approach in dealing with social determinants of inequities in maternal health services coverage

Association analysis of low-phosphorus tolerance in West African pearl millet using DArT markers

Pearl millet [Pennisetum glaucum (L.) R. Br.] is a food security crop in the harshest agricultural regions of the world. While low soil phosphorus (P) availability is a big constraint on its production, especially in West Africa (WA), information on genomic regions responsible for low-P tolerance in pearl millet is generally lacking. We present the first report on genetic polymorphisms underlying several plant P-related parameters, flowering time (FLO) and grain yield (GY) under P-limiting conditions based on 285 diversity array technology markers and 151 West African pearl millet inbred lines phenotyped in six environments in WA under both high-P and low-P conditions. Nine markers were significantly associated with P-related traits, nine markers were associated with FLO, whereas 13 markers were associated with GY each explaining between 5.5 and 15.9 % of the observed variation. Both constitutive and adaptive associations were observed for FLO and GY, with markers PgPb11603 and PgPb12954 being associated with the most stable effects on FLO and GY, respectively, across locations. There were a few shared polymorphisms between traits, especially P-efficiency-related traits and GY, implying possible colocation of genomic regions responsible for these traits. Our findings help bridge the gap between quantitative and molecular methods of studying complex traits like low-P tolerance in WA. However, validation of these markers is necessary to determine their potential applicability in marker-assisted selection programs targeting low-P environments, which are especially important in WA where resource-poor farmers are expected to be the hardest hit by the approaching global P crisis

CHARACTERISING FAMILY FARMS AND THEIR CONSTRAINTS AND AGROECOLOGICAL INTENSIFICATION OPTIONS: A CASE STUDY FROM THE SAHELIAN ZONE, NIGER

Family farms play an important role in food security and nutrition in West Africa. Family farms are rapidly changing and face many constraints. Thus, characterizing them is necessary for policy purposes. This study aimed to characterise family farms in Niger, focusing on the current constraints to family farms and existing agroecological intensification (AEI) options. A survey was conducted using a questionnaire administered to 108 family farms across the selected six study locations. We used descriptive statistics to characterise the family farms and the factorial analysis of mixed data (FAMD) and the Hierarchical Clustering of Principal Components (HCPC) to identify the types of family farms. Results showed that family farms, on average, encompass three households, and the majority (87.2%) of the family farms surveyed were managed by married persons where 25.7% of whom are female. Agriculture remains the primary source of income for 98.2% of people in the study locations, and the main second source of family income (47.7%) is animal husbandry. Family farms are mainly characterised by the presence of the main field (MF) (98%) led by the heads of households and the presence of the women fields (WF) (78%) led by the women. Regarding farm size, the average MF and the WF farm sizes were 3.0 ha and 1.5 ha, respectively. The main identified constraints to family farms were soil fertility decline (84.33%), a recurrent early end of the rainy season (84.33%), farmers’ low income (41.15%), and limited access to the market (24.70%). Twelve potential AEIs options across the study area were explored. In the MF, the major AEI options practised by farmers were: the application of organic manure as fertilizer (73.27%), cereallegume intercropping (68.83%), and Farmer Managed Natural Regeneration (35.85%). Whereas in the WF, the AEI practices were the application of organic manure (55.28%), and cereal-legume intercropping (28.98%). Co-building an integrative approach that combines multiple AEI options in the same field is necessary to tackle the main drivers of the farming systems

CHARACTERISING FAMILY FARMS AND THEIR CONSTRAINTS AND AGROECOLOGICAL INTENSIFICATION OPTIONS: A CASE STUDY FROM THE SAHELIAN ZONE, NIGER

Family farms play an important role in food security and nutrition in West Africa. Family farms are rapidly changing and face many constraints. Thus, characterizing them is necessary for policy purposes. This study aimed to characterise family farms in Niger, focusing on the current constraints to family farms and existing agroecological intensification (AEI) options. A survey was conducted using a questionnaire administered to 108 family farms across the selected six study locations. We used descriptive statistics to characterise the family farms and the factorial analysis of mixed data (FAMD) and the Hierarchical Clustering of Principal Components (HCPC) to identify the types of family farms. Results showed that family farms, on average, encompass three households, and the majority (87.2%) of the family farms surveyed were managed by married persons where 25.7% of whom are female. Agriculture remains the primary source of income for 98.2% of people in the study locations, and the main second source of family income (47.7%) is animal husbandry. Family farms are mainly characterised by the presence of the main field (MF) (98%) led by the heads of households and the presence of the women fields (WF) (78%) led by the women. Regarding farm size, the average MF and the WF farm sizes were 3.0 ha and 1.5 ha, respectively. The main identified constraints to family farms were soil fertility decline (84.33%), a recurrent early end of the rainy season (84.33%), farmers’ low income (41.15%), and limited access to the market (24.70%). Twelve potential AEIs options across the study area were explored. In the MF, the major AEI options practised by farmers were: the application of organic manure as fertilizer (73.27%), cereallegume intercropping (68.83%), and Farmer Managed Natural Regeneration (35.85%). Whereas in the WF, the AEI practices were the application of organic manure (55.28%), and cereal-legume intercropping (28.98%). Co-building an integrative approach that combines multiple AEI options in the same field is necessary to tackle the main drivers of the farming systems