Neues vereinfachtes Infektionsverfahren zur Prüfung von Kartoffelsorten auf Krebsfestigkeit

Lemmerzahl, J.

doi:10.1007/bf01811372

Cited by 39 publications

(12 citation statements)

References 3 publications

Supporting

Mentioning

Contrasting

Unclassified

Order By: Relevance

“…Progeny clones and both parents were phenotyped in spring 2016 for potato wart disease resistance with the Glynne-Lemmerzahl [24, 25] method. For each progeny clone, five tubers were tested for pathotypes 2, 6 and 18 resistance.…”

Section: Methodsmentioning

confidence: 99%

Comparative Subsequence Sets Analysis (CoSSA) is a robust approach to identify haplotype specific SNPs; mapping and pedigree analysis of a potato wart disease resistance gene Sen3

Prodhomme¹,

Esselink²,

Borm³

et al. 2019

Plant Methods

View full text Add to dashboard Cite

Background Standard strategies to identify genomic regions involved in a specific trait variation are often limited by time and resource consuming genotyping methods. Other limiting pre-requisites are the phenotyping of large segregating populations or of diversity panels and the availability and quality of a closely related reference genome. To overcome these limitations, we designed efficient Comparative Subsequence Sets Analysis (CoSSA) workflows to identify haplotype specific SNPs linked to a trait of interest from Whole Genome Sequencing data. Results As a model, we used the resistance to Synchytrium endobioticum pathotypes 2, 6 and 18 that co-segregated in a tetraploid full sib population. Genomic DNA from both parents, pedigree genotypes, unrelated potato varieties lacking the wart resistance traits and pools of resistant and susceptible siblings were sequenced. Set algebra and depth filtering of subsequences ( k -mers) were used to delete unlinked and common SNPs and to enrich for SNPs from the haplotype(s) harboring the resistance gene(s). Using CoSSA, we identified a major and a minor effect locus. Upon comparison to the reference genome, it was inferred that the major resistance locus, referred to as Sen3 , was located on the north arm of chromosome 11 between 1,259,552 and 1,519,485 bp. Furthermore, we could anchor the unanchored superscaffold DMB734 from the potato reference genome to a synthenous interval. CoSSA was also successful in identifying Sen3 in a reference genome independent way thanks to the de novo assembly of paired end reads matching haplotype specific k -mers. The de novo assembly provided more R haplotype specific polymorphisms than the reference genome corresponding region. CoSSA also offers possibilities for pedigree analysis. The origin of Sen3 was traced back until Ora. Finally, the diagnostic power of the haplotype specific markers was shown using a panel of 56 tetraploid varieties. Conclusions CoSSA is an efficient, robust and versatile set of workflows for the genetic analysis of a trait of interest using WGS data. Because the WGS data are used without intermediate reads mapping, CoSSA does not require the use of a reference genome. This approach allowed the identification of Sen3 and the design of haplotype specific, diagnostic markers. Electronic supplementary material The online version of this article (10.1186/s13007-019-0445-5) contains supplementary material, which is available to authorized users.

show abstract

Section: Methodsmentioning

confidence: 99%

Comparative Subsequence Sets Analysis (CoSSA) is a robust approach to identify haplotype specific SNPs; mapping and pedigree analysis of a potato wart disease resistance gene Sen3

Prodhomme¹,

Esselink²,

Borm³

et al. 2019

Plant Methods

View full text Add to dashboard Cite

show abstract

“…Tubers of plants grown in pots in the greenhouse were tested for resistance to S. endobioticum pathotypes 1, 2 and 6 at the Bayerische Landesanstalt fu¨r Bodenkultur und Pflanzenbau (Freising-Weihenstephan, Germany) based on the methods of Glynne (1925) and Lemmerzahl (1930). Up to 10 tubers per clone were inoculated with each pathotype.…”

Section: Test For Wart Resistancementioning

confidence: 99%

Marker-assisted combination of major genes for pathogen resistance in potato

et al. 2006

View full text Add to dashboard Cite

Closely linked PCR-based markers facilitate the tracing and combining of resistance factors that have been introgressed previously into cultivated potato from different sources. Crosses were performed to combine the Ry adg gene for extreme resistance to Potato virus Y (PVY) with the Gro1 gene for resistance to the root cyst nematode Globodera rostochiensis and the Rx1 gene for extreme resistance to Potato virus X (PVX), or with resistance to potato wart (Synchytrium endobioticum). Marker-assisted selection (MAS) using four PCR-based diagnostic assays was applied to 110 F1 hybrids resulting from four 2· by 4· cross-combinations. Thirty tetraploid plants having the appropriate marker combinations were selected and tested for presence of the corresponding resistance traits. All plants tested showed the expected resistant phenotype. Unexpectedly, the plants segregated for additional resistance to pathotypes 1, 2 and 6 of S. endobioticum, which was subsequently shown to be inherited from the PVY resistant parents of the crosses. The selected plants can be used as sources of multiple resistance traits in pedigree breeding and are available from a potato germplasm bank.

show abstract

“…Resistance to S. endobioticum pathotypes 18 and 6 (hereafter abbreviated as P18 and P6) was determined as previously described by Ballvora et al (2011) according to a modified Glynne–Lemmerzahl test (Glynne 1925; Lemmerzahl 1930) where the tubers were not covered with a moist soil/peat mixture after the inoculation. The pathotypes P18 and P6 used for inoculation originated from infested areas in the south of Germany.…”

Section: Methodsmentioning

confidence: 99%

Improved genetic resolution for linkage mapping of resistance to potato wart in monoparental dihaploids with potential diagnostic value in tetraploid potato varieties

et al. 2018

View full text Add to dashboard Cite

Key messageWe achieved improved mapping resolution of the major wart resistance locus Xla-TNL containing also Sen1 in a dihaploid population using SNP data and developed additional markers with diagnostic value in tetraploid varieties.AbstractWe analyzed a segregating monoparental dihaploid potato population comprising 215 genotypes derived from a tetraploid variety that is highly resistant to Synchytrium endobioticum pathotypes 18 and 6. The clear bimodal segregation for both pathotypes indicated that a major dominant resistance factor in a simplex allele configuration was present in the tetraploid donor genotype. Compared to that in previous analyses of the same tetraploid donor in conventional crosses with susceptible tetraploid genotypes, a segregation pattern with a reduced genetic complexity of resistance in dihaploids was observed here. Using the 12.8 k SolCAP SNP array, we mapped a resistance locus to the Xla-TNL region containing also Sen1 on potato chromosome 11. The improved mapping resolution provided by the monoparental dihaploids allowed for the localization of the genes responsible for the resistance to both pathotypes in an interval spanning less than 800 kbp on the reference genome. Furthermore, we identified eight molecular markers segregating without recombination to pathotype 18 and pathotype 6 resistance. Also, two developed markers display improved diagnostic properties in an independent panel of tetraploid varieties. Overall, our data provide the highest resolution mapping of wart resistance genes at the Xla-TNL locus thus far.Electronic supplementary materialThe online version of this article (10.1007/s00122-018-3172-9) contains supplementary material, which is available to authorized users.

show abstract

Neues vereinfachtes Infektionsverfahren zur Prüfung von Kartoffelsorten auf Krebsfestigkeit

Cited by 39 publications

References 3 publications

Comparative Subsequence Sets Analysis (CoSSA) is a robust approach to identify haplotype specific SNPs; mapping and pedigree analysis of a potato wart disease resistance gene Sen3

Comparative Subsequence Sets Analysis (CoSSA) is a robust approach to identify haplotype specific SNPs; mapping and pedigree analysis of a potato wart disease resistance gene Sen3

Marker-assisted combination of major genes for pathogen resistance in potato

Improved genetic resolution for linkage mapping of resistance to potato wart in monoparental dihaploids with potential diagnostic value in tetraploid potato varieties

Contact Info

Product

Resources

About