Data from: The genetic structure of a Venturia inaequalis population in a heterogeneous host population composed of different Malus species
Leroy, Thibault, University of Angers
Lemaire, Christophe, University of Angers
Dunemann, Frank, Julius Kühn-Institut
Le Cam, Bruno, University of Angers
Published Mar 15, 2013 on Dryad.
Cite this dataset
Leroy, Thibault; Lemaire, Christophe; Dunemann, Frank; Le Cam, Bruno (2013). Data from: The genetic structure of a Venturia inaequalis population in a heterogeneous host population composed of different Malus species [Dataset]. Dryad. https://doi.org/10.5061/dryad.970b3
Background: Adaptation, which induces differentiation between populations in relation to environmental conditions, can initiate divergence. The balance between gene flow and selection determines the maintenance of such a structure in sympatry. Studying these two antagonistic forces in plant pathogens is made possible because of the high ability of pathogens to disperse and of the strong selective pressures exerted by their hosts. In this article, we analysed the genetic structure of the population of the apple scab fungus, Venturia inaequalis, in a heterogeneous environment composed of various Malus species. Inferences were drawn from microsatellite and AFLP data obtained from 114 strains sampled in a single orchard on nine different Malus species to determine the forces that shape the genetic structure of the pathogen. Results: Using clustering methods, we first identified two specialist subpopulations: (i) a virulent subpopulation sampled on Malus trees carrying the Rvi6 resistance gene; and (ii) an avirulent subpopulation infecting only Malus trees that did not carry this resistance gene. A genome scan of loci on these two subpopulations did not detect any locus under selection. Additionally, we did not detect any other particular substructure linked to different hosts. However, an isolation-by-distance (IBD) pattern at the orchard scale revealed free gene flow within each subpopulation. Conclusions: Our work shows a rare example of a very strong effect of a resistance gene on pathogen populations. Despite the high diversity of Malus hosts, the presence of Rvi6 seems sufficient to explain the observed genetic structure. Moreover, detection of an IBD pattern at the orchard scale revealed a very low average dispersal distance that is particularly significant for epidemiologists and landscape managers for the design of scab control strategies.
dataset for all 114 strains
The whole dataset is available for download(114 strains). Note that the observed 106 unique haplotypes (i.e. the clone-corrected dataset used for all the analyses; see the Methods section) are labeled with a "0". Excluded clones are labeled with a "1".