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Actinopolyspora saharensis DSM 46666 (=H244), a rare actinomycete, was isolated from Palm grove in the Oasis of Inghid in the Mzab region of the Algerian Sahara and deposited in the German Collection of Microorganisms and Cell Cultures (DSMZ). Here, we report the draft genome sequence of strain DSM 46666, with a size of 4.67 Mbp and a G+C content of 69.5 %. Bioinformatic analysis of the genomic sequence revealed the carbohydrate-active enzyme gene repertoires involved in carbohydrate metabolism and the occurrence of 14 biosynthetic gene clusters disclosing the secondary metabolite capacity of strain DSM 46666.
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