First Report of Blackleg of Potato Caused by <i>Dickeya solani</i> in Brazil

Cardoza, Yuliet Franco; Duarte, Valmir; Lopes, C. A.

doi:10.1094/pdis-07-16-1045-pdn

Cited by 15 publications

(10 citation statements)

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“…The presence of D. solani strains was reported in Europe and beyond, e.g. in the Netherlands [19], Belgium [40], Israel [35], Turkey [41], Finland [28], Norway [42], Portugal [31], Czech Republic [43], Denmark [43], United Kingdom [44], Northern Ireland [45], Greece [46], France [47], Switzerland [48], Spain [49], Slovenia [50], Georgia [51], Russia [52], Germany [32], Brazil [53] and China [54]. Notably, the tested isolates originated from a limited number of plants including potato [27,28,35], hyacinth [23] and iris [19], which might be related to previous assumptions on strict linkage between highly specialized pathogens of clonal origin and their host [19,55].…”

Section: Introductionmentioning

confidence: 99%

Comparative genomics and pangenome-oriented studies reveal high homogeneity of the agronomically relevant enterobacterial plant pathogen Dickeya solani

et al. 2020

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Background: Dickeya solani is an important plant pathogenic bacterium causing severe losses in European potato production. This species draws a lot of attention due to its remarkable virulence, great devastating potential and easier spread in contrast to other Dickeya spp. In view of a high need for extensive studies on economically important soft rot Pectobacteriaceae, we performed a comparative genomics analysis on D. solani strains to search for genetic foundations that would explain the differences in the observed virulence levels within the D. solani population. Results: High quality assemblies of 8 de novo sequenced D. solani genomes have been obtained. Wholesequence comparison, ANIb, ANIm, Tetra and pangenome-oriented analyses performed on these genomes and the sequences of 14 additional strains revealed an exceptionally high level of homogeneity among the studied genetic material of D. solani strains. With the use of 22 genomes, the pangenome of D. solani, comprising 84.7% core, 7.2% accessory and 8.1% unique genes, has been almost completely determined, suggesting the presence of a nearly closed pangenome structure. Attribution of the genes included in the D. solani pangenome fractions to functional COG categories showed that higher percentages of accessory and unique pangenome parts in contrast to the core section are encountered in phage/mobile elements-and transcription-associated groups with the genome of RNS 05.1.2A strain having the most significant impact. Also, the first D. solani large-scale genome-wide phylogeny computed on concatenated core gene alignments is herein reported. Conclusions: The almost closed status of D. solani pangenome achieved in this work points to the fact that the unique gene pool of this species should no longer expand. Such a feature is characteristic of taxa whose

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Section: Introductionmentioning

confidence: 99%

Comparative genomics and pangenome-oriented studies reveal high homogeneity of the agronomically relevant enterobacterial plant pathogen Dickeya solani

et al. 2020

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“…D. dadantii causes soft rot disease in several members of the Solanaceae family, including the potato [ 21 ]. Another virulent species, namely D. solani, spread rapidly throughout Western Europe [ 22 ] and in Russia [ 23 ], and into other countries such as Turkey [ 24 ], Georgia [ 25 ] and Brazil [ 26 ]. During the past decade, the taxonomy of Dickeya and Pectobacterium species was revisited following genomic studies bearing on international culture collections and diverse ecosystems around the world [ 27 , 28 ].…”

Section: Introductionmentioning

confidence: 99%

Diversity of Pectobacteriaceae Species in Potato Growing Regions in Northern Morocco

Oulghazi

Moumni

Khayi³

et al. 2020

Microorganisms

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Dickeya and Pectobacterium pathogens are causative agents of several diseases that affect many crops worldwide. This work investigated the species diversity of these pathogens in Morocco, where Dickeya pathogens have only been isolated from potato fields recently. To this end, samplings were conducted in three major potato growing areas over a three-year period (2015–2017). Pathogens were characterized by sequence determination of both the gapA gene marker and genomes using Illumina and Oxford Nanopore technologies. We isolated 119 pathogens belonging to P. versatile (19%), P. carotovorum (3%), P. polaris (5%), P. brasiliense (56%) and D. dianthicola (17%). Their taxonomic assignation was confirmed by draft genome analyses of 10 representative strains of the collected species. D. dianthicola were isolated from a unique area where a wide species diversity of pectinolytic pathogens was observed. In tuber rotting assays, D. dianthicola isolates were more aggressive than Pectobacterium isolates. The complete genome sequence of D. dianthicola LAR.16.03.LID was obtained and compared with other D. dianthicola genomes from public databases. Overall, this study highlighted the ecological context from which some Dickeya and Pectobacterium species emerged in Morocco, and reported the first complete genome of a D. dianthicola strain isolated in Morocco that will be suitable for further epidemiological studies.

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“…The presence of D. solani strains was reported in Europe and beyond, e.g. in the Netherlands [19], Belgium [40], Israel [37], Turkey [41], Finland [28], Norway [42], Portugal [33], Czech Republic [43], Denmark [43], United Kingdom [44], Northern Ireland [45], Greece [46], France [47], Switzerland [48], Spain [49], Slovenia [50], Georgia [51], Russia [52], Germany [34], Brazil [53] and China [54]. Notably, the tested isolates originated from a limited number of plants including potato [27,28,37], hyacinth [23] and iris [19], which might be related to previous assumptions on strict linkage between highly specialized pathogens of clonal origin and their host [19,55].…”

Section: Introductionmentioning

confidence: 99%

Comparative genomics and pangenome-oriented studies reveal high homogeneity of the agronomically relevant enterobacterial plant pathogen Dickeya solani

Motyka-Pomagruk

Żołędowska

Misztak

et al. 2020

Preprint

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Abstract Background: Dickeya solani was pointed as a significant trait to potato production in Europe and drew much of scientific attention due to remarkable virulence, great devastating potential and easier spread in contrast to other Dickeya spp. In a view of a high need for extensive studies on economically important soft rot Pectobacteriaceae, we performed a nearly conclusive pangenome analysis on D. solani strains to search for genetic foundations that would explain the differences in the observed virulence levels within the D. solani population.Results: High quality assemblies of 8 de novo sequenced D. solani genomes have been obtained. Whole-sequence comparison, ANIb, ANIm, Tetra and pangenome-oriented analyses performed on these genomes sequences and the sequences of 14 additional strains revealed exceptionally high level of homogeneity among the studied genetic material of D. solani strains. With the use of 22 genomes, the pangenome of D. solani, comprising 84.7% core, 7.2% accessory and 8.1% unique genes, has been almost completely determined, suggesting the presence of a nearly closed pangenome structure. Attribution of the genes included in the D. solani pangenome fractions to functional COG categories revealed that higher percentages of accessory and unique pangenome parts in contrast to the core section are encountered in phage/mobile elements- and transcription- associated groups with the genome of RNS 05.1.2A strain having the most significant impact. Also, the first D. solani large-scale genome-wide phylogeny computed on concatenated core gene alignments is herein reported.Conclusions: The almost closed status of D. solani pangenome achieved in this work points to the fact that the unique gene pool of this species should no longer expand. Such a feature is characteristic for taxa, whose representatives either occupy isolated ecological niches or lack efficient mechanisms for gene exchange and recombination, which seems rational concerning a strictly pathogenic species with clonal spread and population structure. Finally, no obvious correlations between the geographical origin of D. solani strains and their phylogeny was found, which might reflect the specificity of the international seed potato market.

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First Report of Blackleg of Potato Caused by Dickeya solani in Brazil

Cited by 15 publications

References 4 publications

Comparative genomics and pangenome-oriented studies reveal high homogeneity of the agronomically relevant enterobacterial plant pathogen Dickeya solani

Comparative genomics and pangenome-oriented studies reveal high homogeneity of the agronomically relevant enterobacterial plant pathogen Dickeya solani

Diversity of Pectobacteriaceae Species in Potato Growing Regions in Northern Morocco

Comparative genomics and pangenome-oriented studies reveal high homogeneity of the agronomically relevant enterobacterial plant pathogen Dickeya solani

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