Maize streak virus (MSV) contributes significantly to the problem of extremely low African maize yields. Whilst a diverse range of MSV and MSV-like viruses are endemic in sub-Saharan Africa and neighbouring islands, only a single group of maize-adapted variants -MSV subtypes A 1 -A 6 -causes severe enough disease in maize to influence yields substantially. In order to assist in designing effective strategies to control MSV in maize, a large survey covering 155 locations was conducted to assess the diversity, distribution and genetic characteristics of the Ugandan MSV-A population. PCR-restriction fragment-length polymorphism analyses of 391 virus isolates identified 49 genetic variants. Sixty-two full-genome sequences were determined, 52 of which were detectably recombinant. All but two recombinants contained predominantly MSV-A 1 -like sequences. Of the ten distinct recombination events observed, seven involved inter-MSV-A subtype recombination and three involved intra-MSV-A 1 recombination. One of the intra-MSV-A 1 recombinants, designated MSV-A 1 UgIII, accounted for .60 % of all MSV infections sampled throughout Uganda. Although recombination may be an important factor in the emergence of novel geminivirus variants, it is demonstrated that its characteristics in MSV are quite different from those observed in related African cassava-infecting geminivirus species.

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Cowpea is an important legume crop widely grown in sub-Saharan Africa for food and feed. However, it is largely challenged by bruchid, a serious storage pest resulting in losses in quantity and quality of grains. Therefore, this research was designed to contribute to the breeding of cowpea resistance to bruchid through the identification of candidate genes associated with resistance to bruchid. A total of 217 mini-core cowpea accessions were genotyped and phenotyped for their reactions to bruchid. To determine the genomic regions linked with bruchid resistance, 41,948 polymorphic SNP markers were used. Genome-wide association study identified 11 SNPs linked to the average number of eggs, holes, insect emergence and development period and Dobie susceptibility index. Gene search via Phytozome identified six candidate genes (

Pseudocercospora griseola the casual pathogen for angular leaf spot (ALS) on common bean (Phaseolus vulgaris) is highly variable with many different races occurring in different agro-ecological zones. Therefore, for an effective breeding program, there is a need to continuously monitor the distribution and variability of the pathogen as a means of guiding breeders on which races to target. A study was conducted to assess the incidence, severity and variability of P. griseola in bean growing districts of Dokolo, Lira, Apac, Sironko, Mbale, Rakai, Lwengo, Bukomansibi, Kabale and Kisoro in Uganda. Forty five out of 80 isolates collected were tested on a set of 12 international bean differentials cultivars for ALS. Molecular markers were also used to elucidate the variability among isolates. In all districts, ALS was found wide spread with a mean incidence of 49.9%. Dokolo district had the highest disease incidence and severity, while Kisoro registered the lowest values respectively. In terms of altitude, incidence (60%) and severity (45%) were high for bean fields located between 1000-1200 m and low disease incidence (33.6%) and severity (20.7%) for fields lying above 1500 m. The standard differential cultivars and molecular markers defined 12 pathotypes and 30 haplotypes respectively. These belonged to Middle America and Andean group with considerably high level of diversity. Our findings indicated the presence of ALS in Uganda with high incidence, severity and variability across districts and altitudes. Hence strategic interventions involving integrated disease management and breeding for durable resistance are required to manage the disease.