Screening of triploid banana population under natural and controlled black sigatoka disease for genomic selection

The black sigatoka disease (BSD) is the most important foliar threat in banana production and breeding efforts against it should take advantage of genomic selection (GS) that has become one of the most explored tools to increase genetic gain, save time and reduce selection costs. In order to evaluate the potential of GS in banana for BSD, 210 triploid accessions were obtained from the African Banana and Plantain Research Center (CARBAP) to constitute a training population (TP). The variability in the population was assessed at the phenotypic level using BSD- and agronomic-related traits and at the molecular level using Single Nucleotide Polymorphism (SNPs). The analysis of variance showed a significant difference between accessions for almost all traits measured, while at the genomic group level; there was no significant difference for BSD-related traits. The Index of Non spotted leave among accessions ranged from 0.11 to 0.8. The accessions screening in controlled conditions confirmed the susceptibility of all genomic groups to BSD. The principal components analysis with phenotypic data revealed no clear diversity partition of the population. However, the structure analysis and the hierarchical clustering analysis with SNPs grouped the population into four (4) clusters and two (2) sub-populations respectively. The field and laboratory screening of the banana genomic selection TP confirmed that all genomic groups are susceptible to BSD but did not reveal any genetic structure while SNPs markers exhibited clear genetic structure and provided useful information in the perspective of applying genomic selection.

Narrow genetic diversity in germplasm from the Guinean and Sudano-Guinean zones in Benin indicates the need to broaden the genetic base of sweet fig banana (Musa acuminata cv Sotoumon)

Sweet fig (M. acuminata cv. Sotoumon) is an economically important dessert banana in Benin, with high nutritional, medicinal, and cultural values. Nevertheless, its productivity and yield are threatened by biotic and abiotic stresses. Relevant knowledge of the genetic diversity of this economically important crop is essential for germplasm conservation and the development of breeding programs. However, very little is known about the genetic makeup of this cultivar in Benin. To advance the understanding of genetic diversity in sweet fig banana germplasm, a Genotype-By-Sequencing (GBS) was performed on a panel of 273 accessions collected in different phytogeographical zones of Benin. GBS generated 8,457 quality SNPs, of which 1992 were used for analysis after filtering. The results revealed a low diversity in the studied germplasm (He = 0.0162). Genetic differentiation was overall very low in the collection as suggested by the negative differentiation index (Fstg = -0.003). The Analysis of Molecular Variance (AMOVA) indicated that the variation between accessions within populations accounted for 83.8% of the total variation observed (P < 0.001). The analysis of population structure and neighbor-joining tree partitioned the germplasm into three clusters out of which a predominant major one contained 98.1% of all accessions. These findings demonstrate that current sweet fig banana genotypes shared a common genetic background, which made them vulnerable to biotic and abiotic stress. Therefore, broadening the genetic base of the crop while maintaining its quality attributes and improving yield performance is of paramount importance. Moreover, the large genetic group constitutes an asset for future genomic selection studies in the crop and can guide the profiling of its conservation strategies.

Genotype × environment interaction and stability analysis for seed yield and yield components in sesame (Sesamum indicum L.) in Benin Republic using AMMI, GGE biplot and MTSI

Increasing production requires the development of high yielding cultivars adapted to various environments. Multi-environment trials (MET) remains the best approach to assess the performance of accessions across environments. The objective of this study was to select the best performing and stable accessions of sesame across different environments in Benin Republic. Nineteen sesame accessions were evaluated across eight environments using a randomized complete block design with four replicates. The accessions were evaluated for three traits: days to 50% flowering (D50F), thousand-seed weight (TSW), and seed yield (SY) during 2020 growing season. The stable and top-performing accessions across environments were determined using AMMI (Additive main effects and multiplicative interaction), GGE (Genotype main effect and genotype × environment interaction), and MTSI (Multi-trait stability index). AMMI analysis of variance showed a significant difference across environments for the three traits. The accessions were affected by environmental conditions for the three traits. The broad-sense heritability estimates were high (>0.60) for all the traits, indicating the improvement is achievable through selection. AMMI1 and AMMI2 biplots identified G10 and G13 as high seed yielding accessions adapted to environments E1, E2. The GGE biplot showed two mega-environments for TSW and three mega-environments for D50F and SY. For SY, G11 and G13 were the best accessions in the first mega-environment, G10 the best accession in the second mega-environment; G3 and G8 were the best accessions in the third mega-environment. AMMI and GGE analyses identified G10, G5, G12 as high seed yielding and stable accessions across environments. GGE biplot revealed that E1 and E2 were the most suitable environments for multi-location trials based on their discriminating ability and representativeness. MTSI indicated G10, G13, G19 as promising germplasm to be recommended for breeding program.

The Gynandropsis gynandra genome provides insights into whole-genome duplications and the evolution of C4 photosynthesis in Cleomaceae

Gynandropsis gynandra (Cleomaceae) is a cosmopolitan leafy vegetable and medicinal plant, which has also been used as a model to study C4 photosynthesis due to its evolutionary proximity to C3 Arabidopsis (Arabidopsis thaliana). Here, we present the genome sequence of G. gynandra, anchored onto 17 main pseudomolecules with a total length of 740 Mb, an N50 of 42 Mb and 30,933 well-supported gene models. The G. gynandra genome and previously released genomes of C3 relatives in the Cleomaceae and Brassicaceae make an excellent model for studying the role of genome evolution in the transition from C3 to C4 photosynthesis. Our analyses revealed that G. gynandra and its C3 relative Tarenaya hassleriana shared a whole-genome duplication event (Gg-α), then an addition of a third genome (Th-α, +1×) took place in T. hassleriana but not in G. gynandra. Analysis of syntenic copy number of C4 photosynthesis-related gene families indicates that G. gynandra generally retained more duplicated copies of these genes than C3T. hassleriana, and also that the G. gynandra C4 genes might have been under positive selection pressure. Both whole-genome and single-gene duplication were found to contribute to the expansion of the aforementioned gene families in G. gynandra. Collectively, this study enhances our understanding of the polyploidy history, gene duplication and retention, as well as their impact on the evolution of C4 photosynthesis in Cleomaceae.

Analysis of genetic diversity and agronomic variation in banana sub-populations for genomic selection under drought stress in southern Benin

In the perspective of investigating genomic selection (GS) among Musa genotypes in West and Central Africa, banana accessions were phenotyped under natural drought stress in Benin and genotyped using genotyping by sequencing. Sixty-one (61) accessions grouped into three major genomic groups AAA, AAB and ABB and those without genomic affiliation information were used. Variation within the population was determined by phenotypic variables while population structure and clustering analysis were carried out to understand the genetic diversity at the molecular level. Among the genomic groups evaluated, the group AAB showed the best performance for fruit weight at maturity, (3.41 ± 1.99 kg) and for plant height (198.46 ± 12.66 cm). At the accession level, HD 117 S1 and NIA 27 showed the best plant height (263.16 ± 20.98 cm) and the best fruit weight at maturity (9.43 ± 0.0 kg) respectively. Phenotypic data did not reveal clear genetic diversity among accessions; however, the genetic diversity was conspicuous at the molecular level using 5000 markers. The affiliations of local accessions in genomic groups were determined for the first time based on the phenotypic and molecular data obtained in this study. The knowledge generated allows the possibility to apply GS in banana.

Forgotten food crops in sub-Saharan Africa for healthy diets in a changing climate

As climate changes in sub-Saharan Africa (SSA), Africa's "forgotten" food crops offer a wide range of options to diversify major staple production as a key measure toward achieving zero hunger and healthy diets. So far, however, these forgotten food crops have been neglected in SSA's climate-change adaptation strategies. Here, we quantified their capacity to adapt cropping systems of SSA's major staples of maize, rice, cassava, and yams to changing climates for the four subregions of West, Central, East, and Southern Africa. We used climate-niche modeling to explore their potential for crop diversification or the replacement of these major staples by 2070, and assessed the possible effects on micronutrient supply. Our results indicated that approximately 10% of the present production locations of these four major staples in SSA may experience novel climate conditions in 2070, ranging from a high of almost 18% in West Africa to a low of less than 1% in Southern Africa. From an initial candidate panel of 138 African forgotten food crops embracing leafy vegetables, other vegetables, fruits, cereals, pulses, seeds and nuts, and roots and tubers, we selected those that contributed most to covering projected future and contemporary climate conditions of the major staples' production locations. A prioritized shortlist of 58 forgotten food crops, able to complement each other in micronutrient provision, was determined, which covered over 95% of assessed production locations. The integration of these prioritized forgotten food crops in SSA's cropping systems will support the "double-win" of more climate-resilient and nutrient-sensitive food production in the region.

Genome-wide diversity analysis suggests divergence among Upper Guinea and the Dahomey Gap populations of the Sisrè berry (Syn: miracle fruit) plant (Synsepalum dulcificum [Schumach. & Thonn.] Daniell) in West Africa

Although Synsepalum dulcificum is viewed as one of the most economically promising orphan tree crops worldwide, its genetic improvement and sustainable conservation are hindered by a lack of understanding of its evolutionary history and current population structure. Here, we report for the first time the application of genome-wide single nucleotide polymorphism genotyping to a diverse panel of S. dulcificum accessions to depict the genetic diversity and population structure of the species in the Dahomey Gap (DG) and Upper Guinea (UG) regions to infer its evolutionary history. Our findings suggest low overall genetic diversity but strong population divergence within the species. Neighbor-joining analysis detected two genetic groups in the UG and DG regions, while STRUCTURE distinguished three genetic groups, corresponding to the UG, Western DG, and Central DG regions. Application of Monmonier's algorithm revealed the existence of a barrier disrupting connectivity between the UG and DG groups. The Western DG group consistently exhibited the highest levels of nucleotide and haplotype diversities, while that of the Central DG exhibited the lowest. Analyses of Tajima's D, Fu's Fs, and Achaz Y* statistics suggest that while both UG and Central DG groups likely experienced recent expansions, the Western DG group is at equilibrium. These findings suggest a geographical structuring of genetic variation which supports the conclusion of differential evolutionary histories among West African groups of S. dulcificum. These results provide foundational insights to guide informed breeding population development and design sustainable conservation strategies for this species.

Enabling effective maize seed system in low-income countries of West Africa: Insights from Benin

Introduction

Access to high-quality seeds remains a key constraint to the intensification of crop production in low-income countries. In this study, we analyzed maize seed production and distribution systems in Benin to identify leverage points for effective seed systems, a prerequisite for improving maize production.

Methods

Semi-structured interviews were conducted with 81 seed producers selected in seven municipalities across the three phytogeographical zones of Benin. Key informant interviews were also conducted with ten public and private stakeholders involved in maize seed systems in Benin.

Results and discussion

Findings showed that the legal and institutional frameworks governing seed systems in Benin were recently reinforced with a national seed policy, the creation and operationalization of the National Committee of Plant Seeds and the existence of regulations and rules on the production, quality control, certification, trade, and packaging of seeds. In addition, enabling conditions to facilitate the involvement of the private sector have been greatly improved with the revision of modalities for obtaining approval for the production and distribution of seeds in Benin. While the seed sector is improving and both public and private stakeholders are involved in maize seed production and distribution, synergies among stakeholders need to be strengthened. Strengthening business and marketing skills of seed producers through training and promoting the comparative advantages of improved seeds in increasing yield and production among maize farmers could be a promising avenue. Connecting seed producers with maize farmers' organizations coupled with ICT-based agro-advisories could boost the development of the maize seed sector, and ultimately the maize value chain.

Perspective for genomic-enabled prediction against black sigatoka disease and drought stress in polyploid species

Genomic selection (GS) in plant breeding is explored as a promising tool to solve the problems related to the biotic and abiotic threats. Polyploid plants like bananas (Musa spp.) face the problem of drought and black sigatoka disease (BSD) that restrict their production. The conventional plant breeding is experiencing difficulties, particularly phenotyping costs and long generation interval. To overcome these difficulties, GS in plant breeding is explored as an alternative with a great potential for reducing costs and time in selection process. So far, GS does not have the same success in polyploid plants as with diploid plants because of the complexity of their genome. In this review, we present the main constraints to the application of GS in polyploid plants and the prospects for overcoming these constraints. Particular emphasis is placed on breeding for BSD and drought-two major threats to banana production-used in this review as a model of polyploid plant. It emerges that the difficulty in obtaining markers of good quality in polyploids is the first challenge of GS on polyploid plants, because the main tools used were developed for diploid species. In addition to that, there is a big challenge of mastering genetic interactions such as dominance and epistasis effects as well as the genotype by environment interaction, which are very common in polyploid plants. To get around these challenges, we have presented bioinformatics tools, as well as artificial intelligence approaches, including machine learning. Furthermore, a scheme for applying GS to banana for BSD and drought has been proposed. This review is of paramount impact for breeding programs that seek to reduce the selection cycle of polyploids despite the complexity of their genome.

Leaf elemental composition analysis in spider plant [Gynandropsis gynandra L. (Briq.)] differentiates three nutritional groups

Understanding the genetic variability within a plant species is paramount in implementing a successful breeding program. Spider plant (Gynandropsis gynandra) is an orphan leafy vegetable and an extraordinary source of vitamins, secondary metabolites and minerals, representing an important resource for combatting malnutrition. However, an evaluation of the leaf elemental composition, using a worldwide germplasm collection to inform breeding programs and the species valorization in human nutrition is still lacking. The present study aimed to profile the leaf elemental composition of G. gynandra and depict any potential geographical signature using a collection of 70 advanced lines derived from accessions originating from Asia and Eastern, Southern and West Africa. The collection was grown in a greenhouse using a 9 × 8 alpha lattice design with two replications in 2020 and 2021. Inductively coupled plasma-optical emission spectrometry was used to profile nine minerals contents. A significant difference (p < 0.05) was observed among the lines for all nine minerals. Microelements such as iron, zinc, copper and manganese contents ranged from 12.59-430.72, 16.98-166.58, 19.04-955.71, 5.39-25.10 mg kg^-1 dry weight, respectively, while the concentrations of macroelements such as potassium, calcium, phosphorus and magnesium varied in the ranges of 9992.27-49854.23, 8252.80-33681.21, 3633.55-14216.16, 2068.03-12475.60 mg kg^-1 dry weight, respectively. Significant and positive correlations were observed between iron and zinc and calcium and magnesium. Zinc, calcium, phosphorus, copper, magnesium, and manganese represented landmark elements in the genotypes. Eastern and Southern African genotypes were clustered together in group 1 with higher phosphorus, copper and zinc contents than Asian and West African lines, which clustered in group 2 and were characterized by higher calcium, magnesium and manganese contents. An additional outstanding group 3 of six genotypes was identified with high iron, zinc, magnesium, manganese and calcium contents and potential candidates for cultivar release. The genotype × year interaction variance was greater than the genotypic variance, which might translate to phenotypic plasticity in the species. Broad-sense heritability ranged from low to high and was element-specific. The present results reveal the leaf minerals diversity in spider plant and represent a baseline for implementing a minerals-based breeding program for human nutrition.

Major Production Constraints and Spider Plant [Gynandropsis gynandra (L.) Briq.] Traits Preferences Amongst Smallholder Farmers of Northern Namibia and Central Malawi

Spider plant (Gynandropsis gynandra (L.) Briq.) is among the most important African Leafy Vegetables (ALVs) as a source of essential nutrients with the potential of contributing significantly to household food and nutritional security and mitigation of hidden hunger. Nevertheless, the vegetable is considered an orphan crop and its production is challenged by inadequate research to identify and improve traits preferred by smallholder farmers. The research was conducted to identify the main challenges impacting the production of spider plants and identify traits preferred by smallholder farmers in northern Namibia and central Malawi for use in demand-led crop improvement. Semi-structured interviews involving a random selection of 197 farming households from five regions of northern Namibia and three districts of central Malawi were conducted. In addition, six key informant interviews and four focus group discussions were conducted to triangulate the findings. Data were analyzed using IBM SPSS version 20. Fischer's exact test was used to test for independence in the ranking of production constraints and agronomic traits, while Kendall's Coefficient of Concordance (W) was used to measure agreement levels in the ranking across the countries. Farmers indicated lack of seed, poor soil fertility, poor seed germination and drought as the main production challenges across the two countries. Production constraints were ranked differently (p &lt; 0.001) across the study sites suggesting the influence of biophysical and socio-economic factors associated with production. High yield and drought tolerance were considered the most important agronomic traits among the smallholder farmers in both countries. The findings of this study are useful for designing demand-driven pre-breeding trials that prioritize the needs of the end-users. Demand-led breeding has the potential to stimulate the production and utilization of spider plant, hence contributing to household food and nutritional security.

Morphotype Classification Criteria and Influence of Sociocultural Factors on Perceived Shea Tree (Vitellaria paradoxa C.F. Gaertn) Natural Variation across Parklands in Benin

Trait diversity is crucial in undertaking the domestication of useful species such as Vitellaria paradoxa which makes a significant contribution to the rural household economy in Africa. This study aims to document the criteria farmers use to distinguish shea trees; how they vary according to age, education level and sociolinguistic group; and their perception of trees’ abundance and production. We surveyed 405 respondents across shea parklands in Benin using a semi-structured questionnaire. We used the Kruskal-Wallis test to evaluate the influence of sociodemographic attributes on relative criteria citation frequency and principal components analysis to characterize farmers’ perception on morphotypes’ abundance, fruits, and butter yields. The five most cited criteria were fruit size (55.5%), tree fertility (15.40%), bark colour (10.51%), timing of production (5.38%), and pulp taste (3.42%). The citation frequency of criteria varied significantly depending on the sociodemographic factors considered. Trees having small fruit (‘Yanki’) were reported to be widespread and high fruit/nuts and butter producers. Farmers perceived five important traits with variable importance depending on the sociocultural factors studied. This finding is a key step toward the development of a shea improvement program that could focus on the morphotype Yanki reported to potentially be a high fruit and butter producer.

Profiling Cultivars Development in Kersting's Groundnut [Macrotyloma geocarpum (Harms) Maréchal and Baudet] for Improved Yield, Higher Nutrient Content, and Adaptation to Current and Future Climates

Kersting's groundnut [Macrotyloma geocarpum (Harms.) Maréchal and Baudet], Fabaceae, is an important source of protein and essential amino acids. As a grain legume species, it also contributes to improving soil fertility through symbiotic nitrogen fixation. However, the crop is characterized by a relatively low yield (≤500 kg/ha), and limited progress has been made so far, toward the development of high-yielding cultivars that can enhance and sustain its productivity. Recently, there was an increased interest in alleviating the burdens related to Kersting's groundnut (KG) cultivation through the development of improved varieties. Preliminary investigations assembled germplasms from various producing countries. In-depth ethnobotanical studies and insightful investigation on the reproductive biology of the species were undertaken alongside morphological, biochemical, and molecular characterizations. Those studies revealed a narrow genetic base for KG. In addition, the self-pollinating nature of its flowers prevents cross-hybridization and represents a major barrier limiting the broadening of the genetic basis. Therefore, the development of a research pipeline to address the bottlenecks specific to KG is a prerequisite for the successful expansion of the crop. In this paper, we offer an overview of the current state of research on KG and pinpoint the knowledge gaps; we defined and discussed the main steps of breeding for KG' cultivars development; this included (i) developing an integrated genebank, inclusive germplasm, and seed system management; (ii) assessing end-users preferences and possibility for industrial exploitation of the crop; (iii) identifying biotic and abiotic stressors and the genetic control of responsive traits to those factors; (iv) overcoming the cross-pollination challenges in KG to propel the development of hybrids; (v) developing new approaches to create variability and setting adequate cultivars and breeding approaches; (vi) karyotyping and draft genome analysis to accelerate cultivars development and increase genetic gains; and (vii) evaluating the adaptability and stability of cultivars across various ecological regions.

Maize streak virus research in Africa: an end or a crossroad

The economic importance of the maize streak virus disease to the African maize production dynamic is to be appreciated now more than ever due to the preponderant influence of a changing climate. Continued dependence on a single major-effect quantitative trait locus (QTL) called Msv1 on Chromosome 1 of Maize (Zea mays L.) is not guaranteed to ensure durable resistance to the causal pathogen. With over ten decades of research on the disease and its associated host plant resistance mechanisms, it is pertinent to consider future approaches to attaining durability by looking to the synergistic roles of moderate- and minor-effect QTLs located on other chromosomes so as to facilitate a secure farming system for sub-Saharan Africa. For this review, more than 40 publications relating to maize streak disease research were methodically analysed with about 30% making specific reference to conventional, molecular and transgenic approaches employed in introgressing, maintaining and improving streak resistance in maize. A meta-analysis of mapped QTLs conferring streak resistance was conducted in a bid to reveal any inter-dependence or co-localization of resistant loci and to aid decision-making for marker-assisted breeding. With the changing climatic conditions around the globe, man's preparedness in the event of an epidemic following any evolutionary process in the streak viral genome was determined as insufficient. Modern breeding approaches including gene pyramiding that could be considered in maize breeding programmes to ensure durability for streak resistance were proposed while improving maize for other abiotic stress tolerance, particularly drought.

Dietary Phytochemical Screening of Spider Plant (Gynandropsis gynandra (L.) Briq.) Accessions From Africa and Asia to Identify Genotypes for Use in Nutraceutical Breeding

Increased public awareness of healthy foods and healthy living, coupled with escalating medicinal costs and recent advances in research and technology, has sparked a paradigm shift to nutraceuticals, which guarantee human health and disease prevention. Spider plant (Gynandropsis gynandra) contains dietary phytochemicals with high nutritional and medicinal properties that can contribute to healthy living. A study was conducted to identify spider plant (Gynandropsis gynandra (L.) Briq.) accessions with superior levels of dietary phytochemicals and anti-oxidative activity for use in nutraceutical breeding. Thirty-three accessions of spider plant, representing a wide genetic diversity based on geographic areas of origin (Asia, East Africa, Southern Africa, and West Africa), were used. Total phenolic acids, tannins, and anthocyanins were extracted and quantified using the Folin-Ciocalteau colorimetric, spectrophotometric, and pH differential methods, respectively. Antioxidant activity was determined using phosphomolybdenum method. Results showed significant variation in levels of total phenolic compounds, tannins, anthocyanins, and antioxidant activity (P &lt; 0.05) amongst the spider plant accessions and regions of origin; ODS-15-037 (464 mg TAE/g DW), ODS-15-053 (270 mg GAE/g DW), and BC-02A (127 mg cyanidin-3-glucoside/g DW) had the highest levels of total tannins, phenolic compounds, and anthocyanins, respectively. Antioxidant activity was high in ODS-15-053 (492.2 mg AAE/100 g DW), NAM 2232 (445.3 mg AAE/100 g DW), and NAM-6 (432.5 mg AAE/100 g DW). On average, West African accessions had significantly high tannin concentrations (239 mg TAE/g DW), while Southern Africa accessions contained significantly high anthocyanin content (58.9 mg cyanidin-3-glucoside/g DW). The superior accessions are potential candidates for use in nutraceutical breeding, while the regions of origin could be used as gene pools for specific phytochemicals for improving dietary supplements of nutraceuticals. The strong antioxidant activity exhibited by spider plant accessions suggests the presence of compounds responsible for scavenging free oxygen or nitrogen radicals. Further studies are recommended to identify the chromosomal regions that contain genes controlling the dietary nutraceuticals in the genetic materials and to determine their association with foliage yield and other phenotypes, which can be utilized in spider plant improvement.

Genome-Wide Scanning Enabled SNP Discovery, Linkage Disequilibrium Patterns and Population Structure in a Panel of Fonio (Digitaria exilis [Kippist] Stapf) Germplasm

White fonio (Digitaria exilis) is a staple food for millions of people in arid and semi-arid areas of West Africa. Knowledge about nutritional and health benefits, insights into morphological diversity, and the recent development of genomic resources call for a better understanding of the genetic structure of the extant germplasm gathered throughout the region in order to set up a robust breeding program. We assessed the genetic diversity and population structure of 259 fonio individuals collected from six countries from West Africa (Nigeria, Benin, Guinea, Mali, Burkina Faso and Niger) in this study using 688 putative out of 21,324 DArTseq-derived SNP markers. Due to the inbreeding and small population size, the results revealed a substantial level of genetic variability. Furthermore, two clusters were found irrespective of the geographic origins of accessions. Moreover, the high level of linkage disequilibrium (LD) between loci observed resulted from the mating system of the crop, which is often associated with a low recombination rate. These findings fill the gaps about the molecular diversity and genetic structure of the white fonio germplasm in West Africa. This was required for the application of genomic tools that can potentially speed up the genetic gain in fonio millet breeding for complex traits such as yield, and other nutrient contents.

Improvement of a Traditional Orphan Food Crop, Portulaca oleracea L. (Purslane) Using Genomics for Sustainable Food Security and Climate-Resilient Agriculture

Purslane (Portulaca oleracea L.) is a popular orphan crop used for its nutritional properties in various parts of the world. It is considered one of the richest terrestrial sources of omega-3 and omega-6-fatty acids (ω-3 and 6-FAs) suggesting its importance for human health. This ethnomedicinal plant is also an important part of traditional healing systems among the indigenous people. Many studies have indicated its tolerance against multiple stresses and found that it easily grows in a range of environmental gradients. It has also been considered one of the important biosaline crops for the future. Despite its huge nutritional, economic, and medicinal importance, it remains neglected to date. Most of the studies on purslane were focused on its ethnomedicinal, phytochemical, pharmacological, and stress-tolerance properties. Only a few studies have attempted genetic dissection of the traits governing these traits. Purslane being an important traditional food crop across the globe can be valorized for a sustainable food security in the future. Therefore, this review is an attempt to highlight the distribution, domestication, and cultivation of purslane and its importance as an important stress-tolerant food and a biosaline crop. Furthermore, identification of genes and their functions governing important traits and its potential for improvement using genomics tools for smart and biosaline agriculture has been discussed.

Comparative analysis of management practices and end-users' desired breeding traits in the miracle plant [Synsepalum dulcificum (Schumach & Thonn.) Daniell] across ecological zones and sociolinguistic groups in West Africa

BACKGROUND

Understanding end-users' preferred breeding traits and plant management practices is fundamental in defining sound breeding objectives and implementing a successful plant improvement programme. Since such knowledge is lacking for Synsepalum dulcificum, a worldwide promising orphan fruit tree species, we assessed the interrelationships among socio-demography, ecology, management practices, diversity and ranking of desired breeding traits by end-users of the species (farmers, final consumers and processing companies) in West Africa.

METHODS

Semi-structured interviews, field-visits and focus groups were combined to interview a total of 300 farmers and final consumers belonging to six sociolinguistic groups sampled from three ecological zones of Benin and Ghana. One processing company in Ghana was also involved. Data collected included socio-demographic characteristics; crop management systems and practices; and preferences of farmers, final consumers and processing companies and ranking of breeding traits. Data were analysed using descriptive statistics, independence, and non-parametric tests, generalized linear models, multi-group similarity index and Kendall's concordance coefficient.

RESULTS

Men (86.33% of respondents) were the main holders of S. dulcificum in the study area. The three most frequent management practices observed in the species included weeding, fertilization and pruning, which were applied by 75.66%, 27.33% and 16.66% of respondents, respectively. The management intensity index varied significantly across ecological zones, sociolinguistic groups, and instruction level (p < 0.001) but was not affected by gender (p > 0.05). General multigroup similarity indices ([Formula: see text]) for farmer-desired traits, on one hand, and final consumer-desired traits, on the other hand, were high across ecological zones ([Formula: see text] ≥ 0.84) and sociolinguistic groups ([Formula: see text] > 0.83). Nevertheless, respondents from the Guineo-Congolian (Benin) and the Deciduous forest (Ghana) zones expressed higher agreement in the ranking of desired breeding traits. Preference for breeding traits was 60% similar among farmers, final consumers, and processors. The key breeding traits desired by these end-users included in descending order of importance big fruit size, early fruiting, high fruit yielding (for farmers); big fruit size, high fruit miraculin content, fruit freshness (for final consumers); and high fruit miraculin content, big fruit size, high fruit edible ratio (for processing companies).

CONCLUSION

This study revealed stronger variations in current management practices across ecological zones than across sociolinguistic groups. A high similarity was shown in end-users' preferences for breeding traits across the study area. Top key traits to consider in breeding varieties of S. dulcificum to meet various end-users' expectations in West Africa include fruit size and fruit miraculin content. These results constitute a strong signal for a region-wide promotion of the resource.

Effect of Planting Density and K2O:N Ratio on the Yield, External Quality, and Traders' Perceived Shelf Life of Pineapple Fruits in Benin

Quality, shelf life, and yield of a pineapple fruit are the important attributes for the producers and customers in the pineapple value chain of Benin, whereas poor quality, short shelf life, and low yield are the main constraints. We quantified the effects of planting density and K₂O:N fertilizer ratio on the pineapple yield, external quality, and perceived shelf life in four on-farm experiments with cv. Sugarloaf in Benin; two experiments were installed in the long rainy season and two in the short rainy season. A split-plot design was used with the planting density as the main factor at three levels: 54,000, 66,600, and 74,000 plants.ha^-1. The K₂O:N ratio was a subfactor with three levels: K₂O:N = 0.35 (farmers' practice), K₂O:N = 1, and K₂O:N = 2. The results showed that both factors had no effect on the crop development variables (such as the number of functional leaves and D-leaf length) at the moment of flowering induction. The planting density had no effect on the total weight per fruit, infructescence weight, total fruit length, infructescence length, crown length, or the fruit shelf life as perceived by traders. The yield increased from 54.9-69.1 up to 90.1 t.ha^-1 with an increase in the planting density. The yield increase was not at the expense of the fruit weight. Increased K₂O:N ratio led to a higher fruit weight whereas the fruit length was not affected. The shelf life of fruits produced at a K₂O:N ratio of 1 and as perceived by traders was 6 days longer than that of fruits produced at a ratio of 0.35 (farmers' practice). Based on these results, we suggest the fresh pineapple farmers in Benin to use a combination of 66,600 plants.ha^-1 with a K-fertilization scheme based on a K₂O:N ratio of 1 to meet the expectation of both producers and customers in terms of fruit yield and fruit quality.

Phenotypic variation, functional traits repeatability and core collection inference in Synsepalum dulcificum (Schumach & Thonn.) Daniell reveals the Dahomey Gap as a centre of diversity

The miracle plant Synsepalum dulcificum is a multipurpose natural sweetener and a promising West African orphan fruit shrub candidate for genetic improvement. Unfortunately, basic knowledge such as phenotypic variation and inheritance estimates required for implementing a breeding program are still lacking. A set of 203 accessions were sampled in two habitats from seven populations spread across the Dahomey Gap (DG) and the Upper Guinea forest (UG) in West Africa. The phenotypic diversity and allometric relationships among functional traits were analysed; the broad-sense heritability was estimated for fruit-traits, and a mini-core collection was developed in the species. Quantitative variation in tree- and fruit-traits was recorded, and multivariate analyses were performed to assess relationships among accessions, whereas heritability was estimated using the coefficient of repeatability. Tree-traits observed in S. dulcificum were more variable than fruit-traits. While habitat-type only affected tree-traits, the provenance population significantly affected both fruit- and tree-traits, with the UG populations outperforming the DG ones. Significant correlations were observed among fruit-traits on one hand, and among tree-traits on the other hand, whereas poor correlations were observed between tree- and fruit-traits. The multivariate analysis grouped accessions in three clusters. Promising individuals for high fruit mass and pulp-dense genotypes' selection were identified within clusters. Repeatability estimates for fruit-traits ranged from 0.015 (edible ratio) to 0.88 (fruit mass). The Core Hunter algorithm enabled the extraction of 41 individuals as robust representatives of the initial set of 203 accessions, and the mapping of this core collection suggested Dahomey Gap as a centre of diversity of the species. These original findings offer opportunities, not only for the genetic improvement of S. dulcificum, but also for targeted ex-situ conservation in the species.

Natural variation in specialised metabolites production in the leafy vegetable spider plant (Gynandropsis gynandra L. (Briq.)) in Africa and Asia

The improvement and promotion of leafy vegetables, used for both food and medicine, benefits greatly from detailed knowledge of their health-promoting specialised metabolites. In the present study, we investigated the global metabolite variation in the leaves of 48 accessions of the leafy vegetable Gynandropsis gynandra using two complementary analytical platforms: liquid-chromatography mass spectrometry (LC-MS) for an untargeted comparison of non-volatile semi-polar metabolites and gas-chromatography mass spectrometry (GC-MS) for an untargeted comparison of volatile metabolites. Our results revealed large variation in 936 semi-polar compounds including flavonoids, terpene glycosides, glucosinolates and various phenolic compounds. Unsupervised multivariate analysis indicated the variation in levels of the semi-polar metabolites was mainly driven by geography, with accessions from both West Africa and Asia forming a group clearly separated from East African accessions. Detected volatile metabolites included various sesquiterpenes, aldehydes, ketones, and sulphur-containing isothiocyanates. Variation in these compounds was however not geographically specific, but most likely linked to the taste and aroma of the leaves. The relative abundance in glucosinolates and isothiocyanates in the leaves allowed the clustering of accessions into two main groups that could be used for further plant-herbivore interaction studies. This study revealed both the broad spectrum of phytochemicals present in Gynandropsis gynandra leaves and the substantial variation in metabolite profiles among accessions from different regions of the world. Our results provide a basis for the development of breeding programs aiming at improving the levels of specialised metabolites in this tropical leafy vegetable for increased resistance against pests and diseases and improved human health.

Origin-dependence of variation in seed morphology, mineral composition and germination percentage in Gynandropsis gynandra (L.) Briq. accessions from Africa and Asia

BACKGROUND

Spider plant [Gynandropsis gynandra (L.) Briq.], an economically promising African leafy vegetable, characterized for leaf yield components and nutritive quality, exhibits poor seed germination that hinders a wider expansion of the crop in urban and periurban horticultural systems. So far, there is little information pertaining to seed morphological traits and mineral elements content that may be associated with higher seed germination. This research investigated the hypothesis that spider plants from different geographical areas exhibited differences in seed mineral composition, morphological traits, and germination capacity. To this end, twenty-nine accessions of Gynandropsis gynandra from West and East-Southern Africa, and Asia were screened for variation in seed size (area, perimeter, length, width), 10-seed weight, mean germination time, germination percentage and mineral content variations. The scanning electron microscopy (SEM), light microscopy and energy dispersive spectroscopy (EDS) solution were used to study seed morphology and mineral composition.

RESULTS

We show for the first time the external and internal structure of the seeds of Gynandropsis gynandra and measured eight mineral elements, including carbon (C), oxygen (O), magnesium (Mg), aluminium (Al), phosphorus (P), sulphur (S), potassium (K) and calcium (Ca). The accessions differed significantly (p < 0.001) with respect to seed size (area, perimeter, length, width), 10-seed weight, mean germination time and germination percentage. The hierarchical cluster analysis based on fourteen variables grouped the accessions into three distinct clusters, partially dependent on their geographical origin. Asian accessions exhibited smaller seeds and recorded higher values in terms of germination percentage. West African accessions had bigger seeds but with lower germination percentage. Variation in minerals such as potassium, carbon, and calcium content showed different patterns according to geographical origins.

CONCLUSION

Smaller seeds in G. gynandra exhibited better germination capacity. The Asian germplasm is a potential source of cultivars with a higher germination percentage for improving seed quality in the species.

Association between vitamin content, plant morphology and geographical origin in a worldwide collection of the orphan crop Gynandropsis gynandra (Cleomaceae)

The variability in nutrient content and morphology in Gynandropsis gynandra is associated with the geographic origin of the accessions and provides a basis for breeding for higher levels of vitamin C, carotenoids or tocopherols in higher-yielding cultivars. We examined the variation in carotenoids, tocopherols and ascorbic acid as well as morphological traits in a worldwide germplasm of 76 accessions of the orphan leafy vegetable Gynandropsis gynandra (Cleomaceae) using greenhouse experiments and high-performance liquid chromatography analysis. The levels of carotenoids and tocopherols accumulating in the leaves varied significantly across accessions and were linked with the geographical origin and morphological variation. The main carotenoids included lutein, β-carotene, α-carotene and violaxanthin. A twofold to threefold variation was observed for these compounds. The main tocopherols detected were α-tocopherol and γ-tocopherol with a 20-fold variation. A ninefold variation in vitamin C concentration and independent of geographical origin was observed. Overall, the accessions were grouped into three clusters based on variation in nutrient content and morphology. West African accessions were short plants with small leaves and with high tocopherol contents and relatively low carotenoid contents, Asian accessions were short plants with broad leaves and with relatively low carotenoid and high tocopherol contents, while East-Southern African plants were tall with high contents of both carotenoids and chlorophylls and low tocopherol contents. Carotenoids were positively correlated with plant height as well as foliar and floral traits but negatively correlated with tocopherols. The absence of a significant correlation between vitamin C and other traits indicated that breeding for high carotenoids or tocopherols content may be coupled with improved leaf yield and vitamin C content. Our study provides baseline information on the natural variation available for traits of interest for breeding for enhanced crop yield and nutrient content in Gynandropsis gynandra.

Shade and nutrient-mediated phenotypic plasticity in the miracle plant Synsepalum dulcificum (Schumach. & Thonn.) Daniell

Phenotypic plasticity as a change of genotype expression in response to environmental heterogeneity varies in magnitude among crop species and can induce a shift in a plant’s phenology. In Synsepalum dulcificum, a West African orphan fruit tree, such phenological plasticity is not well understood. Here, we hypothesize that light stimulation and changes in organic nutrient availability would induce an accelerated transition in S. dulcificum from its juvenile to its reproductive phase. We grew 14-month-old seedlings of S. dulcificum under a range of nutrient regimes, both in shade and in full sunlight, and measured their survival, vegetative growth, biomass allocation, and transition to reproductive maturity. The results reveal that S. dulcificum responds favourably to both shading and nutrient application, with the shading exhibiting a stronger influence on the measured variables. The species’ morphological plasticity, particularly in terms of plant height and stem diameter, was found to exceed both its fitness and allocational plasticities. Under the conditions examined, we observed an accelerated transition to fruiting, at an age of only 24 months. The observed plasticity suggests S. dulcificum to be an intermediate shade-tolerant species. This finding expands our knowledge on the appropriate environmental conditions for the breeding and cultivation of this species.

Repeated domestication of melon (Cucumis melo) in Africa and Asia and a new close relative from India

PREMISE OF THE STUDY

The domestication history of melon is still unclear. An African or Asian origin has been suggested, but its closest wild relative was recently revealed to be an Australian species. The complicated taxonomic history of melon has resulted in additional confusion, with a high number of misidentified germplasm collections currently used by breeders and in genomics research.

METHODS

Using seven DNA regions sequenced for 90% of the genus and the major cultivar groups, we sort out described names and infer evolutionary origins and domestication centers.

KEY RESULTS

We found that modern melon cultivars go back to two lineages, which diverged ca. 2 million years ago. One is restricted to Asia (Cucumis melo subsp. melo), and the second, here described as C. melo subsp. meloides, is restricted to Africa. The Asian lineage has given rise to the widely commercialized cultivar groups and their market types, while the African lineage gave rise to cultivars still grown in the Sudanian region. We show that C. trigonus, an overlooked perennial and drought-tolerant species from India is among the closest living relatives of C. melo.

CONCLUSIONS

Melon was domesticated at least twice: in Africa and Asia. The African lineage and the Indian C. trigonus are exciting new resources for breeding of melons tolerant to climate change.

A roadmap for breeding orphan leafy vegetable species: a case study of Gynandropsis gynandra (Cleomaceae)

Despite an increasing awareness of the potential of "orphan" or unimproved crops to contribute to food security and enhanced livelihoods for farmers, coordinated research agendas to facilitate production and use of orphan crops by local communities are generally lacking. We provide an overview of the current knowledge on leafy vegetables with a focus on Gynandropsis gynandra, a highly nutritious species used in Africa and Asia, and highlight general and species-specific guidelines for participatory, genomics-assisted breeding of orphan crops. Key steps in genome-enabled orphan leafy vegetables improvement are identified and discussed in the context of Gynandropsis gynandra breeding, including: (1) germplasm collection and management; (2) product target definition and refinement; (3) characterization of the genetic control of key traits; (4) design of the 'process' for cultivar development; (5) integration of genomic data to optimize that 'process'; (6) multi-environmental participatory testing and end-user evaluation; and (7) crop value chain development. The review discusses each step in detail, with emphasis on improving leaf yield, phytonutrient content, organoleptic quality, resistance to biotic and abiotic stresses and post-harvest management.

Modelling socioeconomic determinants for cultivation and in-situ conservation of Vitex doniana Sweet (Black plum), a wild harvested economic plant in Benin

BACKGROUND

Cultivation is the most appropriate management option when both demand and harvesting of wild plant species increase beyond natural production levels. In the current study we made the assumption that, besides the intrinsic biological and ecological characteristics of the species, the decision to cultivate and/or to conserve an overharvested wild plant species is triggered by the socioeconomic factors such as land tenure and size, origin of respondents, gender, and users' knowledge of the plant phenology.

METHODS

We carried out semi-structured interviews with 178 informants involved in V. doniana exploitation. The data collected were related to socio-demographic characteristics of informants' household situation, knowledge of the biology and propagation of the species, willingness to cultivate the species, in-situ maintenance of populations, and costs associated with management of the species. According to data types we used Student's t, Spearman correlation, Kruskal-Wallis, Fisher's exact and χ2 tests to test the effects of land tenure, origin of respondents, gender and users' knowledge of plant phenology on the decision making process. Conditional inference tree models and generalized additive models were also used to identify variables which were significantly determinant in the decision to cultivate and/or to conserve the species in-situ.

RESULTS

We found that men were more willing to cultivate the species than women and this is conditioned by land area available. The willingness to conserve the species in-situ depends mainly on the total land area available, the number of trees within the landscape, accessibility of the trees, land tenure, gender, location, seedling cost, and trade-off cost for conservation. People who offered more than one US dollar to acquire a seedling of V. doniana, landowners, and those who own a total land area in excess of 6.5 ha were most willing to conserve the species in-situ.

CONCLUSIONS

From our findings we conclude that future management and conservation initiatives for V. doniana should first target specific user groups for sustainable exploitation of the species. Also, the Cultivation Opportunity Ratio is an important indicator for quick determination of the likelihood of farmers to engage into cultivation and conservation of the species.

Comparative analysis of diversity and utilization of edible plants in arid and semi-arid areas in Benin

BACKGROUND

Agrobiodiversity is said to contribute to the sustainability of agricultural systems and food security. However, how this is achieved especially in smallholder farming systems in arid and semi-arid areas is rarely documented. In this study, we explored two contrasting regions in Benin to investigate how agroecological and socioeconomic contexts shape the diversity and utilization of edible plants in these regions.

METHODS

Data were collected through focus group discussions in 12 villages with four in Bassila (semi-arid Sudano-Guinean region) and eight in Boukoumbé (arid Sudanian region). Semi-structured interviews were carried out with 180 farmers (90 in each region). Species richness and Shannon-Wiener diversity index were estimated based on presence-absence data obtained from the focus group discussions using species accumulation curves.

RESULTS

Our results indicated that 115 species belonging to 48 families and 92 genera were used to address food security. Overall, wild species represent 61% of edible plants collected (60% in the semi-arid area and 54% in the arid area). About 25% of wild edible plants were under domestication. Edible species richness and diversity in the semi-arid area were significantly higher than in the arid area. However, farmers in the arid area have developed advanced resource-conserving practices compared to their counterparts in the semi-arid area where slash-and-burn cultivation is still ongoing, resulting in natural resources degradation and loss of biodiversity. There is no significant difference between the two areas for cultivated species richness. The interplay of socio-cultural attributes and agroecological conditions explains the diversity of food plants selected by communities.

CONCLUSIONS

We conclude that if food security has to be addressed, the production and consumption policies must be re-oriented toward the recognition of the place of wild edible plants. For this to happen we suggest a number of policy and strategic decisions as well as research and development actions such as a thorough documentation of wild edible plants and their contribution to household diet, promotion of the ''bringing into cultivation" practices, strengthening of livestock-crop integration.

Drivers of conservation and utilization of pineapple genetic resources in Benin

Valuation of farmer knowledge has been seen as a route to promote sustainable use of plant genetic resources. In pineapple production systems in Benin, inadequate knowledge of cultivation practices can lead to a number of inconveniences including abandon of some varieties and cultivars. To understand how farmer’s knowledge and cultivation practices impact the sustainable utilization of pineapple genetic resources, we surveyed 177 pineapple farmers in southern Benin. We assessed farmers’ knowledge and analyzed the relationship between their knowledge and factors such as age, education, and locality of provenance. Pineapple production system was dominated by men (96% respondents). According to farmers, Smooth cayenne is international market-oriented while Sugarloaf mainly targets domestic and regional markets. All farmers recognized that Smooth cayenne provided more income (USD 5,750/ha) than sugarloaf (USD 3,950/ha) in the production systems of southern Benin. The high value of median scores in comparison with the range of possible score showed that most farmers agreed and shared relatively similar knowledge. Correlation matrix and multiple linear regressions showed a significant relationship between farmers’ practices and their knowledge of the plant; their knowledge of pineapple varieties is based on fruits traits. Also, farmer’s knowledge was associated with locality of provenance. Constraints and options for genetic resources conservation and utilization in the pineapple production systems in Southern Benin were discussed based on current knowledge.