Genetic diversity of sweet potato begomoviruses in the United States and identification of a natural recombinant between sweet potato leaf curl virus and sweet potato leaf curl Georgia virus

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DOIResolve DOI: http://doi.org/10.1007/s00705-011-0930-2
AuthorSearch for: ; Search for:
TypeArticle
Journal titleArchives of Virology
ISSN0304-8608
Volume156
Issue6
Pages955968; # of pages: 14
Subjectvirus DNA; article; Begomovirus; classification; DNA sequence; genetic recombination; genetic variability; genetics; isolation and purification; nucleotide sequence; phylogeny; plant disease; polymerase chain reaction; sweet potato; United States; virology; virus genome; Base Sequence; Begomovirus; DNA, Viral; Genetic Variation; Genome, Viral; Ipomoea batatas; Mississippi; Phylogeny; Plant Diseases; Polymerase Chain Reaction; Recombination, Genetic; Sequence Analysis, DNA; South Carolina; United States; Begomovirus; Ipomoea batatas; Sweet potato leaf curl Georgia virus; Sweet potato leaf curl virus
AbstractIn the United States, two sweet potato begomoviruses, sweet potato leaf curl virus (SPLCV) and sweet potato leaf curl Georgia virus (SPLCGV), were previously identified in Louisiana. In recent years, at least seven additional sweet potato begomoviruses have been identified in other parts of the world. In an effort to determine the genetic diversity and distribution of sweet potato begomoviruses in the U. S., we focused our efforts on molecular characterization of field-collected begomovirus isolates in two states: Mississippi and South Carolina. Using rolling-circle amplification, a total of 52 clones of the full genome were obtained. Initial inspection of alignments of the end sequences in these clones revealed a strong genetic diversity. Overall, 10 genotypes could be assigned. A majority of the isolates (50/52) in eight genotypes were shown to be closely related to SPLCV. A representative clone of each genotype was fully sequenced and analyzed. Among them, four genotypes from South Carolina with 91-92% sequence identity to the type member of SPLCV were considered a new strain, whereas four other genotypes from Mississippi with <95% sequence identity to SPLCV were considered variants. In addition, a member of a proposed new begomovirus species was identified after comparative sequence analysis of the isolate [US:SC:646B-9] from South Carolina with less than 89% sequence identity to any known begomovirus. Hence, the provisional name Sweet potato leaf curl South Carolina virus (SPLCSCV) is proposed. Moreover, a natural recombinant consisting of two distinct parental genomic sequences from SPLCV and SPLCGV was identified in the sample [US:MS:1B-3] from Mississippi. Two recombinant breakpoints were identified, one in the origin of replication and the other between C2 and C4. This knowledge about the genetic diversity of begomoviruses infecting sweet potato will likely have a major impact on PCR-based virus detection and on disease management practice through breeding for virus resistance. © 2011 Springer-Verlag(outside the USA).
Publication date
LanguageEnglish
AffiliationNational Research Council Canada (NRC-CNRC); NRC Institute for Nutrisciences and Health (INH-ISNS)
Peer reviewedYes
NPARC number21271363
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Record identifier5bc42572-5159-4fa4-adc2-63c348c11f85
Record created2014-03-24
Record modified2016-05-09
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