Genome sequences and SNP analyses of Corynespora cassiicola from cotton and soybean in the southeastern United States reveal limited diversity

PLoS One. 2017 Sep 14;12(9):e0184908. doi: 10.1371/journal.pone.0184908. eCollection 2017.


Corynespora cassiicola attackes diverse agriculturally important plants, including soybean and cotton, in the US. It is a reemerge pathogen on cotton in southeastern US. Whole genome sequences of four cotton and one soybean isolate from Tennessee were used to develop single nucleotide polymorphism markers for cotton isolates. Cotton isolates had little diversity at the genome level and very little differentiation from the soybean isolate. Analysis of 75 isolates from cotton and soybean, using targeted-sequencing of 22 polymorphic SNP sites, revealed eight multi-locus genotypes and it appears a single clonal lineage predominates across the southeastern region. The cotton and soybean genome sequences were significantly different from the public reference genome derived from a rubber isolate and the utility of these novel resources will be discussed.

Publication types

  • Comparative Study

MeSH terms

  • Ascomycota / classification
  • Ascomycota / genetics*
  • Ascomycota / isolation & purification
  • Genetic Variation
  • Genome, Fungal
  • Genotype
  • Glycine max / microbiology*
  • Gossypium / microbiology*
  • Hevea / microbiology*
  • Polymorphism, Single Nucleotide
  • Sequence Analysis, DNA / methods*
  • Southeastern United States

Grants and funding

The authors received no specific funding for this work.