Early blight disease caused by Alternaria sp. is one of the most devastating diseases of

Solanaceous crops widely distributed in Sudan. The aim of this study was to determine the

genetic variation among different Alternaria isolates recovered from different Solanaceae

crops showing typical symptoms of early blight disease. Infected leaves of tomato, potato,

eggplant and pepper were collected from different geographical zones in Sudan. The recovered

fungal isolates were identified to the genus level based on cultural and morphological

characteristics. Five representative isolates were sent to the CABI Bioscience, U.K. for confirmation.

The genetic relationship among the isolates was determined using the amplified

fragments length polymorphism (AFLP) technique and the generated data were used to

create similarity matrices using the PAST 3.01 software package. Dendrograms were constructed

based on Jaccard’s similarity coefficients. A total of 70 fungal isolates was recovered

from the tested plants and all of them showed morphological characteristics typical

of Alternaria spp. The conidia appeared in multiple-branched chains with spore sizes in

the range of 2.38−13.09 μm × 12.30−43.63 μm. Therefore, the isolates were identified as

Alternaria alternata (Fr.) Keissl. The identification was then confirmed by CABI.AFLPbased

dendrogram which revealed five clusters with a significant cophenetic correlation

coefficient (r = 0.834) between the dendrogram and the original similarity matrix irrespective

of their geographical origins. Eighteen (75%) of the Alternaria isolated from tomato

leaves were clustered together in cluster I and five isolates formed two separate clusters,

viz. cluster IV (T-Kh5 and T-H1) and cluster V (T-H4 and T-Med2). The remaining isolate,

T-Am5, grouped with one of the potato isolates in cluster III. The other isolates which were

recovered from potato, pepper and eggplants were all separated from the tomato isolates

in the largest cluster.