Structural variation underlies functional diversity at methyl salicylate loci in tomato

The first assessment of grain yield and associated traits in durum wheat across a decade in Nepal

Rapid urbanization and evolving dietary preferences have heightened the demand for durum wheat and its derivatives in developing nations like Nepal. This study represents the first comprehensive exploration and evaluation of durum wheat genotypes in Nepal, addressing the escalating need for high-yielding varieties. The primary objective was to identify stable and prolific durum wheat lines for release, enhancing Nepal's durum wheat breeding program. Utilizing genotypes from CIMMYT's disease screening and yield nurseries from 2011/12 to 2020/21, a total of 132 genotypes, including international checks, underwent evaluation over ten years under the Alpha Lattice design. Results revealed significant variation among genotypes for grain yield and other traits, identifying high-yielding and stable lines suitable for Nepal. Heritability analysis highlighted moderate heritability for grain number per spike, thousand-grain weight, and grain yield. Cluster analysis identified distinct clusters with high grain yield and desirable agronomic traits. Disease incidence facilitated the selection of resistant lines, with DWK38 emerging as the highest grain yielder (4416.04 kg/ha). Overall, durum wheat lines from CIMMYT exhibited robust performance in Nepal, enabling the identification of superior lines with potential benefits for farmers and consumers. The study's implications include developing and releasing superior durum lines in Nepal, providing farmers with profitable alternatives amidst evolving food habits. In conclusion, the findings from this study provide a valuable foundation for future durum wheat breeding efforts in Nepal, guiding the selection of genotypes that are well-suited to the diverse environmental challenges of the region.

Multi-omic applications for understanding and enhancing tropical fruit flavour

Consumer trends towards nutrient-rich foods are contributing to global increasing demand for tropical fruit. However, commercial cultivars in the breeding pipeline that are tailored to meet market demand are at risk of possessing reduced fruit flavour qualities. This stems from recurrent prioritised selection for superior agronomic traits and not fruit flavour, which may in turn reduce consumer satisfaction. There is realisation that fruit quality traits, inclusive of flavour, must be equally selected for; but currently, there are limited tools and resources available to select for fruit flavour traits, particularly in tropical fruit species. Although sugars, acids, and volatile organic compounds are known to define fruit flavour, the specific combinations of these, that result in defined consumer preferences, remain unknown for many tropical fruit species. To define and include fruit flavour preferences in selective breeding, it is vital to determine the metabolites that underpin them. Then, objective quantitative analysis may be implemented instead of solely relying on human sensory panels. This may lead to the development of selective genetic markers through integrated omics approaches that target biosynthetic pathways of flavour active compounds. In this review, we explore progress in the development of tools to be able to strategically define and select for consumer-preferred flavour profiles in the breeding of new cultivars of tropical fruit species.

Genetic diversity, population structure, and taxonomic confirmation in annual medic (Medicago spp.) collections from Crimea, Ukraine

Annual medic (Medicago spp.) germplasm was collected from the Crimean Peninsula of Ukraine in 2008 to fill gaps in geographic coverage in the United States department of Agriculture, Agricultural Research Service, National Plant Germplasm System (NPGS) temperate-adapted forage legume collection. A total of 102 accessions across 10 Medicago species were collected. To assess genetic diversity, population structure, and to confirm taxonomic identities, the collections were phenotypically and genetically characterized. Phenotyping included the use of 24 descriptor traits while genetic characterization was accomplished using a 3K Diversity Array Technologies (DArTag) panel developed for alfalfa (Medicago sativa L.). For both field and molecular characterizations, a reference set of 92 geographically diverse and species-representative accessions were obtained from the NPGS collection. Phenotypic descriptors showed consistency among replicated plants within accessions, some variation across accessions within species, and evident distinctions between species. Because the DArTag panel was developed for cultivated alfalfa, the transferability of markers to the species being evaluated was limited, resulting in an average of ~1,500 marker loci detected per species. From these loci, 448 markers were present in 95% of the samples. Principal component and phylogenetic analysis based on a larger set of 2,396 selected markers clustered accessions by species and predicted evolutionary relationships among species. Additionally, the markers aided in the taxonomic identity of a few accessions that were likely mislabeled. The genotyping results also showed that sampling individual plants for these mostly self-pollinating species is sufficient due to high reproducibility between single (n=3) and pooled (n=7) biological replicate leaf samples. The phenotyping and the 2,396 Single Nucleotide Polymorphism (SNP) marker set were useful in estimating population structure in the Crimean and reference accessions, highlighting novel and unique genetic diversity captured in the Crimean accessions. This research not only demonstrated the utility of the DArTag marker panel in evaluating the Crimean germplasm but also highlighted its broader application in assessing genetic resources within the Medicago genus. Furthermore, we anticipate that our findings will underscore the importance of leveraging genetic resources and advanced genotyping tools for sustainable crop improvement and biodiversity conservation in annual medic species.

Correction: Structural variation underlies functional diversity at methyl salicylate loci in tomato

[This corrects the article DOI: 10.1371/journal.pgen.1010751.].