M. C. Vaz Patto

Cross-species amplification of Medicago truncatula microsatellites across three major pulse crops

Model plants are facilitating the genetic characterization and comparative mapping of a number of traditional crops. Medicago truncatula has been widely accepted as a model plant to this end as it provides the essential tools for multiple aspects of legume genetics and genomics. A large set of markers from highly conserved M. truncatula gene regions is being created and used to establish a worldwide framework for comparative genomic studies in legumes. We have investigated the potential for cross-species amplification of 209 expressed sequence tag (EST)-based and 33 bacterial artificial chromosome (BAC)-based microsatellites from M. truncatula in the three most important European legume pulses—pea, faba bean and chickpea—that might facilitate future comparative mapping. Our results revealed significant transferability of M. truncatula microsatellites to the three pulses (40% in faba bean, 36.3% in chickpea and 37.6% in pea). The percentage of M. truncatula EST-SSRs (simple sequence repeats) amplified in the three crops (39–43%) was twofold higher than that of the genomic SSRs (21–24%). Sequence analysis determined that the level of conservation in the microsatellite motif was very low, while the flanking regions were generally well conserved. The variations in the sequences were mainly due to changes in the number of repeat motifs in the microsatellite region combined with indel and base substitutions. None of the functional microsatellites showed direct polymorphism among the parental genotypes tested, consequently preventing their immediate use for mapping purposes.

Cereal landraces for sustainable agriculture. A review

Modern agriculture and conventional breeding and the liberal use of high inputs has resulted in the loss of genetic diversity and the stagnation of yields in cereals in less favourable areas. Increasingly landraces are being replaced by modern cultivars which are less resilient to pests, diseases and abiotic stresses and thereby losing a valuable source of germplasm for meeting the future needs of sustainable agriculture in the context of climate change. Where landraces persist there is concern that their potential is not fully realised. Much effort has gone into collecting, organising, studying and analysing landraces recently and we review the current status and potential for their improved deployment and exploitation, and incorporation of their positive qualities into new cultivars or populations for more sustainable agricultural production. In particular their potential as sources of novel disease and abiotic stress resistance genes or combination of genes if deployed appropriately, of phytonutrients accompanied with optimal micronutrient concentrations which can help alleviate aging-related and chronic diseases, and of nutrient use efficiency traits.We discuss the place of landraces in the origin of modern cereal crops and breeding of elite cereal cultivars, the importance of on-farm and ex situ diversity conservation; how modern genotyping approaches can help both conservation and exploitation; the importance of different phenotyping approaches; and whether legal issues associated with landrace marketing and utilisation need addressing. In this review of the current status and prospects for landraces of cereals in the context of sustainable agriculture, the major points are the following: (1) Landraces have very rich and complex ancestry representing variation in response to many diverse stresses and are vast resources for the development of future crops deriving many sustainable traits from their heritage. (2) There are many germplasm collections of landraces of the major cereals worldwide exhibiting much variation in valuable morphological, agronomic and biochemical traits. The germplasm has been characterised to variable degrees and in many different ways including molecular markers which can assist selection. (3) Much of this germplasm is being maintained both in long-term storage and on farm where it continues to evolve, both of which have their merits and problems. There is much concern about loss of variation, identification, description and accessibility of accessions despite international strategies for addressing these issues. (4) Developments in genotyping technologies are making the variation available in landraces ever more accessible. However, high quality, extensive and detailed, relevant and appropriate phenotyping needs to be associated with the genotyping to enable it to be exploited successfully. We also need to understand the complexity of the genetics of these desirable traits in order to develop new germplasm. (5) Nutrient use efficiency is a very important criterion for sustainability. Landrace material offers a potential source for crop improvement although these traits are highly interactive with their environment, particularly developmental stage, soil conditions and other organisms affecting roots and their environment. (6) Landraces are also a potential source of traits for improved nutrition of cereal crops, particularly antioxidants, phenolics in general, carotenoids and tocol in particular. They also have the potential to improve mineral content, particularly iron and zinc, if these traits can be successfully transferred to improved varieties. (7) Landraces have been shown to be valuable sources of resistance to pathogens and there is more to be gained from such sources. There is also potential, largely unrealised, for disease tolerance and resistance or tolerance of pest and various abiotic stresses too including to toxic environments. (8) Single gene traits are generally easily transferred from landrace germplasm to modern cultivars, but most of the desirable traits characteristic of landraces are complex and difficult to express in different genetic backgrounds. Maintaining these characteristics in heterogeneous landraces is also problematic. Breeding, selection and deployment methods appropriate to these objectives should be used rather than those used for high input intensive agriculture plant breeding. (9) Participatory plant breeding and variety selection has proven more successful than the approach used in high input breeding programmes for landrace improvement in stress-prone environments where sustainable approaches are a high priority. Despite being more complex to carry out, it not only delivers improved germplasm, but also aids uptake and communication between farmers, researchers and advisors for the benefit of all. (10) Previous seed trade legislation was designed primarily to protect trade and return royalty income to modern plant breeders with expensive programmes to fund. As the desirability of using landraces becomes more apparent to achieve greater sustainability, legislation changes are being made to facilitate this trade too. However, more changes are needed to promote the exploitation of diversity in landraces and encourage their use.

Lathyrus improvement for resistance against biotic and abiotic stresses: From classical breeding to marker assisted selection

SummarySeveral Lathyrus species and in particular Lathyrus sativus (grass pea) have great agronomic potential as grain and forage legume, especially in drought conditions. Grass pea is rightly considered as one of the most promising sources of calories and protein for the vast and expanding populations of drought-prone and marginal areas of Asia and Africa. It is virtually the only species that can yield high protein food and feed under these conditions. It is superior in yield, protein value, nitrogen fixation, and drought, flood and salinity tolerance than other legume crops. Lathyrus species have a considerable potential in crop rotation, improving soil physical conditions; reducing the amount of disease and weed populations, with the overall reduction of production costs. Grass pea was already in use in Neolithic times, and presently is considered as a model crop for sustainable agriculture. As a result of the little breeding effort invested in it compared to other legumes, grass pea cultivation has shown a regressive pattern in many areas in recent decades. This is due to variable yield caused by sensitivity to diseases and stress factors and above all, to the presence of the neurotoxin β-N-oxalyl-L-α,β-diaminopropionic acid (β-ODAP), increasing the danger of genetic erosion. However, both L. sativus and L. cicera are gaining interest as grain legume crops in Mediterranean-type environments and production is increasing in Ethiopia, China, Australia and several European countries.This paper reviews research work on Lathyrus breeding focusing mainly on biotic and abiotic resistance improvement, and lists current developments in biotechnologies to identify challenges for Lathyrus improvement in the future.

Assessing the genetic diversity of Portuguese maize germplasm using microsatellite markers

A collection of Portuguese maize accessions representing a valuable source of genes for introduction into modern cultivars is stored at the Portuguese Plant Germplasm Bank (Banco Português de Germoplasma Vegetal—BPGV). To assess genetic diversity among inbreds, microsatellite analysis was carried out for 54 inbred lines representing the diversity of Portuguese dent and flint maize germplasm. Fifty American and other European elite inbreds were also analysed for comparison. Fifteen microsatellite loci distributed throughout the maize genome were chosen based on their repeat unit and base composition. A total of 80 alleles were detected with an average allele number of 5.33 per locus. Polymorphism information content (PIC) values and observed genetic distances showed the existence of large variability among inbreds. Cluster analysis indicated that almost all of the inbreds could be distinguished from each other and Portuguese inbreds were present in all clusters formed. These associations were consistent with the known pedigree records of the inbreds, confirming a mixed origin of Portuguese materials. Comparative analysis of microsatellite diversity among groups was established according to important traits for both breeding and line identification. This revealed that, although most of the genetic diversity (>95%) was attributable to differences among inbreds of different groups, the existence of phenotypic differentiation in endosperm colour, kernel type and cob colour could be suggested for grouping. These findings support the joint use of molecular and morphological traits in management of the germplasm collection. In this study, SSR markers proved to be effective to characterise and identify maize inbred lines, and demonstrate associations among them.

Screening techniques and sources of resistance to rusts and mildews in grain legumes

SummaryIn this paper we review the existence of sources of resistance and the various available screening methods for resistance in grain legumes against the airborne pathogens powdery mildews, downy mildews and rusts. Available resistance against these pathogens is not abundant and is particularly in risk of erosion owing to the constant generation and introduction of new races of the pathogen. A continuous search for more resistance sources is therefore a priority in legume breeding and special emphasis should be paid to selection of resistance mechanisms that are likely to be durable and to implementation of strategies to prolong the durability of existing resistance.

Lathyrus diversity: available resources with relevance to crop improvement – L. sativus and L. cicera as case studies

BACKGROUND The Lathyrus genus includes 160 species, some of which have economic importance as food, fodder and ornamental crops (mainly L. sativus, L. cicera and L. odoratus, respectively) and are cultivated in >1·5 Mha worldwide. However, in spite of their well-recognized robustness and potential as a source of calories and protein for populations in drought-prone and marginal areas, cultivation is in decline and there is a high risk of genetic erosion. SCOPE In this review, current and past taxonomic treatments of the Lathyrus genus are assessed and its current status is examined together with future prospects for germplasm conservation, characterization and utilization. A particular emphasis is placed on the importance of diversity analysis for breeding of L. sativus and L. cicera. CONCLUSIONS Efforts for improvement of L. sativus and L. cicera should concentrate on the development of publicly available joint core collections, and on high-resolution genotyping. This will be critical for permitting decentralized phenotyping. Such a co-ordinated international effort should result in more efficient and faster breeding approaches, which are particularly needed for these neglected, underutilized Lathyrus species.

Deciphering Grain Legumes Quality Riddle: The Genomics of Bioactive Compounds

Grain legumes are a vital source of inexpensive plant-based proteins and amino acids and, eaten as part of a healthy diet, they help to prevent chronic diseases. Potential health benefits of grain legumes have been mainly attributed to the presence of secondary metabolites with antioxidant activity. Breeding for improved end-user’s quality is a complex task due to trait interaction. Some of these metabolites, such as phenolic compounds, that act as health-promoting agents are also considered antinutrients, influencing both taste and consumers’ acceptability. Under the scope of LEGATO and BEGEQA projects, we studied the genetic architecture of the total phenolic compounds content in grass pea and common bean seeds. Association mapping approaches were applied to both common bean and grass pea germplasm collections and the genomic regions controlling these bioactive compounds concentration were identified. This work will contribute to the development of grain legume varieties with better nutritional quality, meeting consumers’ expectations at the same time that support the improvement and production of a plant resource with a vital role in sustainable agriculture.