Data from: Soft selective sweeps in fungicide resistance evolution: recurrent mutations without fitness costs in grapevine downy mildew

Delmas CEL, Dussert Y, Delière L, Couture C, Mazet ID, Richard Cervera S, Delmotte F

Date Published: January 6, 2017

DOI: http://dx.doi.org/10.5061/dryad.vp8n9

 

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Title Genetic data (gene haplotypes and microsatellite genotypes) and geographic sampling locations for each isolate
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Description Genetic data (gene haplotypes and microsatellite genotypes) and geographic sampling locations for the 108 Plasmopara viticola isolates. Column description: Isolate_ID: unique isolate identifier Lat: latitude in decimal degrees Long: longitude in decimal degrees Wine_region: region of origin Trait_data: indicates whether quantitative traits were recorded for this isolate (see the « PV_trait_data.txt » file) Fungicide_category: resistance to CAA and QoI fungicides cytb_hap: cytochrome b haplotype. Names follow Chen et al. 2007 CesA3_short_hap1 & 2: CesA3 (short fragment) haplotypes CesA3_long_hap1 & 2: CesA3 (long fragment) haplotypes The last 23 columns give the allele sizes for the amplified microsatellite loci (1 column per locus, each allele is coded by a 3 digit number). Missing data are encoded by "999".
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Title Quantitative traits of pathogenicity of Plasmopara viticola
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Description Quantitative traits of pathogenicity of Plasmopara viticola when inoculated on two different hosts (susceptible: Vitis vinifera cv. Cabernet sauvignon, CS and partially resistant: Cabernet carbon, CC). 108 isolates from the Bordeaux wine region were used and 8 (on CS) and 6 (on CC) leaf discs were inoculated for each isolate (i.e. repetition). The final sample analysed consisted of 1357 leaf discs corresponding to 214 plant-pathogen interactions. Details for each isolate (geographic locations and genetic data) are described in the « PV_genetic_data » file of this package. Cells left blank indicate missing data. The « Latency_Ndays » column indicates the latency period (number of days between inoculation and the first recorded sporangia). The « Sporangium_prod_per_mm2 » column indicates the number of sporangia per mm2 of leaf disc counted at seven days post inoculation (cumulative, over seven days of infection). The « Sporangium_size_µm » column indicates the weighted average of sporangium size. The « nbzoo_per_sporangium » column indicates the number of zoospores contained by each sporangium (on two leaf discs per isolate). The « T50 » column indicates the time at which the pathogen reached 50% of its maximal sporulation at 7 dpi. The « slope_at_T50 » column indicates the slope of the curve (sporulation vs. time) at T50. The « phenotype_CAA » column indicates whether the isolate is resistant or sensitive to CAA fungicides (see the « PV_genetic_data » file of this package). The « phenotype_QOI » column indicates whether the isolate is resistant or sensitive to QoI fungicides (see the « PV_genetic_data » file of this package). The « Fungicide category » column indicates whether the isolate is resistant and/or sensitive to CAA and QoI fungicides.
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Title DNA sequences (cytb gene)
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Download QoI.fasta (59.85 Kb)
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Title DNA sequences (CesA3 gene, short fragment)
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Download CAA_short.fasta (62.44 Kb)
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Title DNA sequences (CesA3 gene; long fragment)
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Description Note that North-American isolates have IDs beginning with MSU
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When using this data, please cite the original publication:

Delmas CEL, Dussert Y, Delière L, Couture C, Mazet ID, Richart Cervera S, Delmotte F (2017) Soft selective sweeps in fungicide resistance evolution: recurrent mutations without fitness costs in grapevine downy mildew. Molecular Ecology, online in advance of print. http://dx.doi.org/10.1111/mec.14006

Additionally, please cite the Dryad data package:

Delmas CEL, Dussert Y, Delière L, Couture C, Mazet ID, Richard Cervera S, Delmotte F (2017) Data from: Soft selective sweeps in fungicide resistance evolution: recurrent mutations without fitness costs in grapevine downy mildew. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.vp8n9
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