Photoperiod control of yield and sink capacity in Bambara groundnut (Vigna subterranea) genotypes

© 2020 The Authors. Food and Energy Security published by John Wiley & Sons Ltd on behalf of Association of Applied Biologists In Bambara groundnut [Vigna subterranea (L) Verdc], long photoperiods can cause a decline in pod and seed number. While negative photoperiod effects on pod yield have been reported, positive effects and the existence of genotypes less sensitive for photoperiod have not been reported. Ten geographically diverse genotypes were evaluated over 3years under short and long photoperiod for yield-related traits (pod number, pod weight, seed number, seed weight, and 100 seed weight), pod growth habit (geocarpic or ageocarpic pods), peduncle elongation and soil penetration, and pod set/abortion. Anatomical sections of gynophores and embryonic pod development of a highly photoperiod sensitive genotype “Ankpa-4” from Nigeria were examined. A strong photoperiodic effect on yield component traits (pod number, pod weight, seed number, seed weight, and 100 seed weight) was observed and with considerable variation between genotypes. Three classes of photoperiod effect on pod yield were identified, (a) qualitative short-day types; (b) quantitative short-day types; and (c) quantitative long-day types. In long photoperiods, above-ground vegetative biomass and the length of lateral branches in some genotypes increased by at least twofold. Morphological and anatomical characterization of gynophores and developing pods of the most sensitive line shows continuous geocarpic growth, but with healthy embryonic pods failing to enlarge after soil penetration. Results from the yield patterns of the three phenotypic classes confirm that pods and seeds are high priority sinks, and long photoperiod alters the balance in assimilate distribution between competing yield forming processes and vegetative sinks. By exploiting the genetic variation characterized here for photoperiod requirement for pod filling, the geographical range of this crop could be extended beyond current growing regions. In the near future, we anticipate that Bambara groundnut will become a significant contributor to global food, nutritional, and environmental security once these photoperiod issues are resolved

Applying molecular genetics to underutilised species – problems and opportunities

Molecular markers represent an important tool for marker-assisted breeding in major crop plant breeding programmes. Applying molecular genetics to underutilised and minor crop species is more challenging as the funds available to research and develop such crops are often severely limited. Bambara groundnut is an underutilised African legume crop with good drought tolerance. It is also grown at low levels in Southeast Asia. In this review we examine some of the applications of DNA markers and illustrate their value in bambara groundnut

Bambara groundnut: an exemplar underutilised legume for resilience under climate change

Main conclusion Bambara groundnut has the potential to be used to contribute more the climate change ready agriculture. The requirement for nitrogen fixing, stress tolerant legumes is clear, particularly in low input agriculture. However, ensuring that existing negative traits are tackled and demand is stimulated through the development of markets and products still represents a challenge to making greater use of this legume. Abstract World agriculture is currently based on very limited numbers of crops, representing a significant risk to food supplies, particularly in the face of climate change which is expected to increase the frequency of extreme events. Minor and underutilised crops can help to develop a more resilient and nutritionally dense future agriculture. Bambara groundnut [Vigna subterranea (L.) Verdc.[, as a drought resistant, nitrogen-fixing, legume has a role to play. However, as with most underutilised crops, there are significant gaps in knowledge and also negative traits such as 'hard-to-cook' and 'photoperiod sensitivity to pod filling' associated with the crop which future breeding programmes and processing methods need to tackle, to allow it to make a significant contribution to the well-being of future generations. The current review assesses these factors and also considers what are the next steps towards realising the potential of this crop

Integrating genetic maps in bambara groundnut [Vigna subterranea (L) Verdc.] and their syntenic relationships among closely related legumes

Background Bambara groundnut [Vigna subterranea (L) Verdc.] is an indigenous legume crop grown mainly in subsistence and small-scale agriculture in sub-Saharan Africa for its nutritious seeds and its tolerance to drought and poor soils. Given that the lack of ex ante sequence is often a bottleneck in marker-assisted crop breeding for minor and underutilised crops, we demonstrate the use of limited genetic information and resources developed within species, but linked to the well characterised common bean (Phaseolus vulgaris) genome sequence and the partially annotated closely related species; adzuki bean (Vigna angularis) and mung bean (Vigna radiata). From these comparisons we identify conserved synteny blocks corresponding to the Linkage Groups (LGs) in bambara groundnut genetic maps and evaluate the potential to identify genes in conserved syntenic locations in a sequenced genome that underlie a QTL position in the underutilised crop genome. Results Two individual intraspecific linkage maps consisting of DArTseq markers were constructed in two bambara groundnut (2n = 2x = 22) segregating populations: 1) The genetic map of Population IA was derived from F2 lines (n = 263; IITA686 x Ankpa4) and covered 1,395.2 cM across 11 linkage groups; 2) The genetic map of Population TD was derived from F3 lines (n = 71; Tiga Nicuru x DipC) and covered 1,376.7 cM across 11 linkage groups. A total of 96 DArTseq markers from an initial pool of 142 pre-selected common markers were used. These were not only polymorphic in both populations but also each marker could be located using the unique sequence tag (at selected stringency) onto the common bean, adzuki bean and mung bean genomes, thus allowing the sequenced genomes to be used as an initial ‘pseudo’ physical map for bambara groundnut. A good correspondence was observed at the macro synteny level, particularly to the common bean genome. A test using the QTL location of an agronomic trait in one of the bambara groundnut maps allowed the corresponding flanking positions to be identified in common bean, mung bean and adzuki bean, demonstrating the possibility of identifying potential candidate genes underlying traits of interest through the conserved syntenic physical location of QTL in the well annotated genomes of closely related species. Conclusions The approach of adding pre-selected common markers in both populations before genetic map construction has provided a translational framework for potential identification of candidate genes underlying a QTL of trait of interest in bambara groundnut by linking the positions of known genetic effects within the underutilised species to the physical maps of other well-annotated legume species, without the need for an existing whole genome sequence of the study species. Identifying the conserved synteny between underutilised species without complete genome sequences and the genomes of major crops and model species with genetic and trait data is an important step in the translation of resources and information from major crop and model species into the minor crop species. Such minor crops will be required to play an important role in future agriculture under the effects of climate change

The draft genomes of five agriculturally important African orphan crops

Background: Continuous growth of the world population is expected to double the worldwide demand for food by 2050. Eighty-eight percent of countries current face a serious burden of malnutrition, especially in Africa and South and South-East Asia. About 95% of the food energy needs of humans are fulfilled by just 30 species, of which wheat, maize and rice provide the majority of calories. Therefore, to diversify and stabilize global food supply, enhance agricultural productivity and tackle malnutrition, greater use of neglected or underutilized local plants (so-called 'orphan crops‘, but also including a few plants of special significance to agriculture, agroforestry and nutrition) could be a partial solution.Results: Here, we present draft genome information from five agriculturally, biologically, medicinally and economically important underutilized plants native to Africa; Vigna subterranea, Lablab purpureus, Faidherbia albida, Sclerocarya birrea, and Moringa oleifera. Assembled genomes range in size from 217 to 654 Mb. In V. subterranea, L. purpureus, F. albida, S. birrea and M. oleifera we have predicted 31707, 20946, 28979, 18937, 18451 protein-coding genes, respectively. By further analysing the expansion and contraction of selected gene families, we have characterized root nodule symbiosis genes, transcription factors and starch biosynthesis-related genes in these genomes.Conclusions: These genome data will be useful to identify and characterize agronomically important genes and understand their modes of action, enabling genomics-based, evolutionary studies, and breeding strategies to design faster, more focused and predictable crop improvement programs

Additional file 2: Figure S2a of Integrating genetic maps in bambara groundnut [Vigna subterranea (L) Verdc.] and their syntenic relationships among closely related legumes

and S2b. The syntenic relationship between linkage groups of TD population through (a) pre-selected common markers or (b) pre-selected common markers and 26% population-specific markers mappable to common bean genome (each line indicates one syntenic location data). The additional homologue information from the population-specific markers could help in further refining the target area underlying QTL. (ZIP 968kb