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

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 m...

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Bibliographic Details
Published in:PloS one 2017-09, Vol.12 (9), p.e0184908-e0184908
Main Authors: Shrestha, Sandesh K, Lamour, Kurt, Young-Kelly, Heather
Format: Article
Language:English
Subjects:
Ascomycota - classification
Ascomycota - genetics
Ascomycota - isolation & purification
Bioinformatics
Biology and Life Sciences
Corynespora cassiicola
Cotton
Cotton (Plant)
Deoxyribonucleic acid
Differentiation
DNA
DNA sequencing
Gene polymorphism
Gene sequencing
Genes
Genetic aspects
Genetic Variation
Genome, Fungal
Genomes
Genotype
Genotypes
Glycine max
Glycine max - microbiology
Gossypium - microbiology
Gossypium hirsutum
Hevea - microbiology
Leaves
Pathogens
Physical Sciences
Plant diseases
Plant pathology
Polymorphism
Polymorphism, Single Nucleotide
Research and Analysis Methods
Rubber
Sequence Analysis, DNA - methods
Single nucleotide polymorphisms
Single-nucleotide polymorphism
Southeastern United States
Soybeans
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Summary: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.
ISSN:1932-6203
1932-6203
DOI:10.1371/journal.pone.0184908