Cytogenomic characterization of Colletotrichum kahawae, the causal agent of coffee berry disease, reveals diversity in minichromosome profiles and genome size expansion

A. S. Pires, Helena G. Azinheira, A. Cabral, S. Tavares, Débora A. Tavares, M. Castro, V. Várzea, M. C. Silva, R. Abranches, J. Loureiro, Pedro Talhinhas

Research output: Contribution to journalArticle

5 Citations (Scopus)

Abstract

Colletotrichum kahawae is an emerging fungal pathogen, which has recently undergone a speciation process from a generalistic ‘C. gloeosporioides species complex' background by acquiring the unique capacity to infect green coffee berries, thus causing coffee berry disease. This is a severe and widespread disease in Africa and an imminent threat to Arabica coffee cultivation in Asia and America, if the pathogen enters those continents. Genetic diversity within C. kahawae is low but notorious differences in pathogen aggressiveness have been described. This work characterized two cytogenomic traits (genome size and minichromosome profiles) of a collection of C. kahawae isolates, representing the breadth of its genetic diversity and distinct aggressiveness classes, along with closely related taxa. The results obtained constitute the first flow cytometry-based genome size estimation in the genus Colletotrichum and show a c. 8 Mb genome size expansion between C. kahawae (79·5 Mb on average) and its closest relatives (71·3 Mb), corroborating evidence indicating that C. kahawae (i.e. the coffee berry disease pathogens) should remain as a distinct species. Results have also shown the presence of two to five minichromosomes in C. kahawae, suggesting a positive relationship between the number of minichromosomes and the level of aggressiveness of the different isolates analysed, while no correlation could be established between aggressiveness and whole genome size. Overall, these results may be the basis for the identification of pathogenicity/aggressiveness-related factors in such minichromosomes, and may provide clues to the characterization of specific markers for aggressiveness classes.

Original languageEnglish
Pages (from-to)968-977
Number of pages10
JournalPlant Pathology
Volume65
Issue number6
DOIs
Publication statusPublished - 1 Aug 2016

Fingerprint

Colletotrichum
Genome Size
Coffee
aggression
Fruit
genome
pathogens
Virulence
Flow Cytometry
genetic variation
small fruits
flow cytometry
Colletotrichum kahawae
coffee berry disease
pathogenicity

Keywords

  • coffee berry disease
  • Colletotrichum gloeosporioides species complex
  • Colletotrichum kahawae
  • cytogenomics
  • genome size
  • minichromosomes

Cite this

Pires, A. S. ; Azinheira, Helena G. ; Cabral, A. ; Tavares, S. ; Tavares, Débora A. ; Castro, M. ; Várzea, V. ; Silva, M. C. ; Abranches, R. ; Loureiro, J. ; Talhinhas, Pedro. / Cytogenomic characterization of Colletotrichum kahawae, the causal agent of coffee berry disease, reveals diversity in minichromosome profiles and genome size expansion. In: Plant Pathology. 2016 ; Vol. 65, No. 6. pp. 968-977.
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abstract = "Colletotrichum kahawae is an emerging fungal pathogen, which has recently undergone a speciation process from a generalistic ‘C. gloeosporioides species complex' background by acquiring the unique capacity to infect green coffee berries, thus causing coffee berry disease. This is a severe and widespread disease in Africa and an imminent threat to Arabica coffee cultivation in Asia and America, if the pathogen enters those continents. Genetic diversity within C. kahawae is low but notorious differences in pathogen aggressiveness have been described. This work characterized two cytogenomic traits (genome size and minichromosome profiles) of a collection of C. kahawae isolates, representing the breadth of its genetic diversity and distinct aggressiveness classes, along with closely related taxa. The results obtained constitute the first flow cytometry-based genome size estimation in the genus Colletotrichum and show a c. 8 Mb genome size expansion between C. kahawae (79·5 Mb on average) and its closest relatives (71·3 Mb), corroborating evidence indicating that C. kahawae (i.e. the coffee berry disease pathogens) should remain as a distinct species. Results have also shown the presence of two to five minichromosomes in C. kahawae, suggesting a positive relationship between the number of minichromosomes and the level of aggressiveness of the different isolates analysed, while no correlation could be established between aggressiveness and whole genome size. Overall, these results may be the basis for the identification of pathogenicity/aggressiveness-related factors in such minichromosomes, and may provide clues to the characterization of specific markers for aggressiveness classes.",
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Pires, AS, Azinheira, HG, Cabral, A, Tavares, S, Tavares, DA, Castro, M, Várzea, V, Silva, MC, Abranches, R, Loureiro, J & Talhinhas, P 2016, 'Cytogenomic characterization of Colletotrichum kahawae, the causal agent of coffee berry disease, reveals diversity in minichromosome profiles and genome size expansion' Plant Pathology, vol. 65, no. 6, pp. 968-977. https://doi.org/10.1111/ppa.12479

Cytogenomic characterization of Colletotrichum kahawae, the causal agent of coffee berry disease, reveals diversity in minichromosome profiles and genome size expansion. / Pires, A. S.; Azinheira, Helena G.; Cabral, A.; Tavares, S.; Tavares, Débora A.; Castro, M.; Várzea, V.; Silva, M. C.; Abranches, R.; Loureiro, J.; Talhinhas, Pedro.

In: Plant Pathology, Vol. 65, No. 6, 01.08.2016, p. 968-977.

Research output: Contribution to journalArticle

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T1 - Cytogenomic characterization of Colletotrichum kahawae, the causal agent of coffee berry disease, reveals diversity in minichromosome profiles and genome size expansion

AU - Pires, A. S.

AU - Azinheira, Helena G.

AU - Cabral, A.

AU - Tavares, S.

AU - Tavares, Débora A.

AU - Castro, M.

AU - Várzea, V.

AU - Silva, M. C.

AU - Abranches, R.

AU - Loureiro, J.

AU - Talhinhas, Pedro

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