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High-throughput sequencing of complete genomes of ipomoviruses associated with an epidemic of cassava brown streak disease in the Comoros Archipelago

Scussel S., Candresse T., Marais A., Claverie S., Hoareau M., Azali Hamza A., Verdin E., Tepfer M., Filloux D., Fernandez E., Roumagnac P., Robene I., Lefeuvre P., Jourda C., Roux-Cuvelier M., Lett J.M.. 2019. Archives of Virology, 164 (8) : p. 2193-2196.

DOI: 10.1007/s00705-019-04228-7

Using high-throughput sequencing of small interfering RNAs (siRNAs), virion-associated nucleic acid (VANA), and double stranded RNAs (dsRNAs), we have determined the complete genome sequences of Comorian isolates of two ipomoviruses, cassava brown streak virus (CBSV) and a divergent isolate of Ugandan cassava brown streak virus (UCBSV-KM) representing a new strain of this virus. While the large ORF of CBSV shares the highest nucleotide sequence identity (95.9%) with a Tanzanian isolate of CBSV, the large UCBSV-KM ORF shares the highest nucleotide sequence identity (77.5%) with a Malawian isolate of UCBSV. This low value is near the species demarcation threshold for the family Potyviridae (<76%). Phylogenetic analysis confirms that UCBSV-KM represents a new lineage that is genetically distinct from the currently described UCBSV strains.

Mots-clés : manioc; potyviridae; génome; séquence nucléotidique; comores; cassava brown streak virus

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