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Phylogeography of the Solanaceae-infecting Basidiomycota fungus Rhizoctonia solani AG-3 based on sequence analysis of two nuclear DNA loci.

Publication ,  Journal Article
Ceresini, PC; Shew, HD; James, TY; Vilgalys, RJ; Cubeta, MA
Published in: BMC evolutionary biology
September 2007

The soil fungus Rhizoctonia solani anastomosis group 3 (AG-3) is an important pathogen of cultivated plants in the family Solanaceae. Isolates of R. solani AG-3 are taxonomically related based on the composition of cellular fatty acids, phylogenetic analysis of nuclear ribosomal DNA (rDNA) and beta-tubulin gene sequences, and somatic hyphal interactions. Despite the close genetic relationship among isolates of R. solani AG-3, field populations from potato and tobacco exhibit comparative differences in their disease biology, dispersal ecology, host specialization, genetic diversity and population structure. However, little information is available on how field populations of R. solani AG-3 on potato and tobacco are shaped by population genetic processes. In this study, two field populations of R. solani AG-3 from potato in North Carolina (NC) and the Northern USA; and two field populations from tobacco in NC and Southern Brazil were examined using sequence analysis of two cloned regions of nuclear DNA (pP42F and pP89).Populations of R. solani AG-3 from potato were genetically diverse with a high frequency of heterozygosity, while limited or no genetic diversity was observed within the highly homozygous tobacco populations from NC and Brazil. Except for one isolate (TBR24), all NC and Brazilian isolates from tobacco shared the same alleles. No alleles were shared between potato and tobacco populations of R. solani AG-3, indicating no gene flow between them. To infer historical events that influenced current geographical patterns observed for populations of R. solani AG-3 from potato, we performed an analysis of molecular variance (AMOVA) and a nested clade analysis (NCA). Population differentiation was detected for locus pP89 (Phi ST = 0.257, significant at P < 0.05) but not for locus pP42F (Phi ST = 0.034, not significant). Results based on NCA of the pP89 locus suggest that historical restricted gene flow is a plausible explanation for the geographical association of clades. Coalescent-based simulations of genealogical relationships between populations of R. solani AG-3 from potato and tobacco were used to estimate the amount and directionality of historical migration patterns in time, and the ages of mutations of populations. Low rates of historical movement of genes were observed between the potato and tobacco populations of R. solani AG-3.The two sisters populations of the basidiomycete fungus R. solani AG-3 from potato and tobacco represent two genetically distinct and historically divergent lineages that have probably evolved within the range of their particular related Solanaceae hosts as sympatric species.

Duke Scholars

Published In

BMC evolutionary biology

DOI

EISSN

1471-2148

ISSN

1471-2148

Publication Date

September 2007

Volume

7

Start / End Page

163

Related Subject Headings

  • Species Specificity
  • Solanaceae
  • Sequence Analysis, DNA
  • Rhizoctonia
  • Polymerase Chain Reaction
  • Phylogeny
  • Nicotiana
  • Mycological Typing Techniques
  • Likelihood Functions
  • Haplotypes
 

Citation

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Ceresini, P. C., Shew, H. D., James, T. Y., Vilgalys, R. J., & Cubeta, M. A. (2007). Phylogeography of the Solanaceae-infecting Basidiomycota fungus Rhizoctonia solani AG-3 based on sequence analysis of two nuclear DNA loci. BMC Evolutionary Biology, 7, 163. https://doi.org/10.1186/1471-2148-7-163
Ceresini, Paulo C., H David Shew, Timothy Y. James, Rytas J. Vilgalys, and Marc A. Cubeta. “Phylogeography of the Solanaceae-infecting Basidiomycota fungus Rhizoctonia solani AG-3 based on sequence analysis of two nuclear DNA loci.BMC Evolutionary Biology 7 (September 2007): 163. https://doi.org/10.1186/1471-2148-7-163.
Ceresini PC, Shew HD, James TY, Vilgalys RJ, Cubeta MA. Phylogeography of the Solanaceae-infecting Basidiomycota fungus Rhizoctonia solani AG-3 based on sequence analysis of two nuclear DNA loci. BMC evolutionary biology. 2007 Sep;7:163.
Ceresini, Paulo C., et al. “Phylogeography of the Solanaceae-infecting Basidiomycota fungus Rhizoctonia solani AG-3 based on sequence analysis of two nuclear DNA loci.BMC Evolutionary Biology, vol. 7, Sept. 2007, p. 163. Epmc, doi:10.1186/1471-2148-7-163.
Ceresini PC, Shew HD, James TY, Vilgalys RJ, Cubeta MA. Phylogeography of the Solanaceae-infecting Basidiomycota fungus Rhizoctonia solani AG-3 based on sequence analysis of two nuclear DNA loci. BMC evolutionary biology. 2007 Sep;7:163.
Journal cover image

Published In

BMC evolutionary biology

DOI

EISSN

1471-2148

ISSN

1471-2148

Publication Date

September 2007

Volume

7

Start / End Page

163

Related Subject Headings

  • Species Specificity
  • Solanaceae
  • Sequence Analysis, DNA
  • Rhizoctonia
  • Polymerase Chain Reaction
  • Phylogeny
  • Nicotiana
  • Mycological Typing Techniques
  • Likelihood Functions
  • Haplotypes