Use of microsatellite markers for the assessment of bambara groundnut breeding system and varietal purity before genome sequencing
| Autor: | Alice Muchugi, Prasad S. Hendre, Sean Mayes, Robert Kariba, Allen Van Deynze, Samuel Muthemba, Festo Massawe, Bo Song, Wai Kuan Ho, Busiso Olga Mavenkeni |
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| Rok vydání: | 2016 |
| Předmět: |
Crops
Agricultural Genetic Markers Zimbabwe 0106 biological sciences 0301 basic medicine Heterozygote DNA Plant Genotype Genomics Biology 01 natural sciences DNA sequencing 03 medical and health sciences Species Specificity Genetics Plant breeding Molecular Biology Abiotic component business.industry fungi Chromosome Mapping food and beverages Agriculture Fabaceae General Medicine Biotechnology Plant Breeding 030104 developmental biology Genetic marker Microsatellite business Genome Plant Microsatellite Repeats 010606 plant biology & botany |
| Zdroj: | Genome. 59:427-431 |
| ISSN: | 1480-3321 0831-2796 |
| DOI: | 10.1139/gen-2016-0029 |
| Popis: | Maximizing the research output from a limited investment is often the major challenge for minor and underutilized crops. However, such crops may be tolerant to biotic and abiotic stresses and are adapted to local, marginal, and low-input environments. Their development through breeding will provide an important resource for future agricultural system resilience and diversification in the context of changing climates and the need to achieve food security. The African Orphan Crops Consortium recognizes the values of genomic resources in facilitating the improvement of such crops. Prior to beginning genome sequencing there is a need for an assessment of line varietal purity and to estimate any residual heterozygosity. Here we present an example from bambara groundnut (Vigna subterranea (L.) Verdc.), an underutilized drought tolerant African legume. Two released varieties from Zimbabwe, identified as potential genotypes for whole genome sequencing (WGS), were genotyped with 20 species-specific SSR markers. The results indicate that the cultivars are actually a mix of related inbred genotypes, and the analysis allowed a strategy of single plant selection to be used to generate non-heterogeneous DNA for WGS. The markers also confirmed very low levels of heterozygosity within individual plants. The application of a pre-screen using co-dominant microsatellite markers is expected to substantially improve the genome assembly, compared to a cultivar bulking approach that could have been adopted. |
| Databáze: | OpenAIRE |
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