Genotyping of pedigreed apple breeding material with a genome-covering set of SSRs: trueness-to-type of cultivars and their parentages

Evans, Kate; Patocchi, Andrea; Rezzonico, Fabio; Mathis, Fabienne; Durel, Charles Eric; Fernández-Fernández, Felicidad; Boudichevskaia, Anastassia; Dunemann, Frank; Stankiewicz‐Kosyl, M.; Gianfranceschi, L.; Komjanc, M.; Lateur, M.; Madduri, Madhuri; Noordijk, Y.; Weg, Eric van de

doi:10.1007/s11032-010-9502-5

Cited by 76 publications

(62 citation statements)

References 15 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Silfverberg-Dilworth et al (2006) reported that 86 reliable, highly polymorphic, and overall the apple genome well-scattered SSRs cover about 85% of apple genome. Patocchi et al (2009) included these SSRs into 21 different multiplex PCR and multiplex Hi12a of six SSRs was enabled to differ 125 used apple genotypes (Evans et al 2011). Thus in total, 89 polymorphic SSR alleles were sufficient and useful for the cluster analysis of 130 apple cultivars by NTSYS-pc v. 2.11V (Exeter Software, New York, USA), with the aim to evaluate genetic diversity and relationships.…”

Section: Resultsmentioning

confidence: 99%

“…The dendrogram showed that there was a genotype dependence on pedigree and origin of apple cultivars (Table 1). Therefore SSR markers were useful for parentage study (Kitahara et al 2005;Evans et al 2011) and cultivar identification (Galli et al 2005;van Treuren et al 2010) of apple genotypes. The first group (I.)…”

Section: Resultsmentioning

confidence: 99%

“…For apple, several hundreds of microsatellite markers were developed (Guilford et al 1997;Hokanson et al 1998;Liebhard et al 2002;Silfverberg-Dilworth et al 2006). SSR markers were used for assessment of genetic diversity in germplasm collections (Hokanson et al 2001;Guarino et al 2006;Pereira-Lorenzo et al 2007;Garkava-Gustavsson et al 2008;Gharghani et al 2009;Patzak et al 2009;Gasi et al 2010), cultivar identification (Galli et al 2005;van Treuren et al 2010), construction of genetic linkage maps (Liebhard et al 2003;Hemmat et al 2003;Silfverberg-Dilworth et al 2006) and for parent identification (Kitahara et al 2005;Evans et al 2011).…”

mentioning

confidence: 99%

See 2 more Smart Citations

Genetic diversity of Czech apple cultivars inferred from microsatellite markers analysis

Patzak¹,

Paprštein²,

Henychová³

et al. 2012

Hort. Sci. (Prague)

View full text Add to dashboard Cite

Patzak J., Paprštein F., Henychová A., Sedlák J., 2012. Genetic diversity of Czech apple cultivars inferred from microsatellite markers analysis. Hort. Sci. (Prague), 39: 149-157.Genetic diversity and genetic relationships of Czech apple cultivars were evaluated. Trees of 33 Czech apple cultivars and 97 reference foreign cultivars were analysed using the set of 10 SSR (simple sequence repeat) primer pairs. The total of 89 polymorphic alleles were amplified, while the number of alleles per locus ranged from 4 to 14. The SSR dendrogram, based on the Jaccard's similarity coefficient, divided apple cultivars into three major groups: Cox's Orange Pippin, McIntosh and Golden Delicious ancestries. The clustering highly depended on pedigree and origin of apple cultivars. Spontaneous mutated cultivars were identical with their progenitors. We proved that microsatellite markers were useful for evaluation of genetic resources, collection management and cultivar identification.

show abstract

Section: Resultsmentioning

confidence: 99%

Section: Resultsmentioning

confidence: 99%

mentioning

confidence: 99%

See 1 more Smart Citation

Genetic diversity of Czech apple cultivars inferred from microsatellite markers analysis

Patzak¹,

Paprštein²,

Henychová³

et al. 2012

Hort. Sci. (Prague)

View full text Add to dashboard Cite

show abstract

“…Either source was considered possible (Table S4). The published pedigree of 'Dayton' (Korban et al 1988) matched with SSR marker genotypes of 'Dayton' and its contributing founders when its assumed great-grandparent 'Jonathan' would be replaced by 'Golden Delicious' (Evans et al 2011b). Extended SNP haplotypes shared between 'Dayton' and 'Golden Delicious' for at least 10 cM span 612 cM, or 26%, of their phased marker data and include five regions larger than 30 cM.…”

Section: Origin Of Lg2 High Disorder Incidence Haplotypementioning

confidence: 99%

Two QTL characterized for soft scald and soggy breakdown in apple (Malus × domestica) through pedigree-based analysis of a large population of interconnected families

Howard

Weg

Tillman

et al. 2017

Tree Genetics & Genomes

View full text Add to dashboard Cite

Soft scald and soggy breakdown are important postharvest physiological disorders of apple (Malus × domestica). 'Honeycrisp' and some of its offspring are particularly susceptible to developing these disorders. The purpose of this study was to identify molecular markers associated with high incidences of soft scald and soggy breakdown for use in marker-assisted breeding. Towards this aim, we employed a pedigree-based approach using mostly germplasm related to 'Honeycrisp.' Two quantitative trait loci (QTL) were consistently identified on linkage groups (LGs) 2 and 16 across the 2014 and 2015 harvest years. The same QTL were identified for both storage disorders, indicating that they may be physiologically related. 'Honeycrisp' is homozygous for an identical by state haplotype at the LG2 QTL that was consistently associated with a deleterious effect on soft scald and soggy breakdown incidence. This haplotype was traced through SNP-confirmed pedigrees to the following cultivars: 'Grimes Golden,' 'Northern Spy,' 'Rome Beauty,' and 'Fireside' and is common in derived apple germplasm. Haplotypes at the LG16 QTL could not be adequately characterized due to variation between years combined with effects of this QTL being of relatively smaller size and being most evident in individuals that carry two copies of the deleterious haplotype at the LG2 QTL. These results suggest that limiting homozygosity of the deleterious haplotype at the LG2 QTL through marker-assisted breeding would be a valid strategy to limit soft scald and soggy breakdown incidences in apple seedling populations.

show abstract

“…Current breeding technologies have included a wide range of traits or selection strategies to satisfy the needs of growers and markets worldwide in developing pest and disease resistant varieties, as well as varieties that meet fruit quality, precocity and yield standards (Evans et al, 2010).…”

Section: Introductionmentioning

confidence: 99%

Identification of the Er1 resistence gene and RNase S-alleles in Malus prunifolia var. ringo rootstock

Agapito-Tenfen

Dantas

Denardi³

et al. 2015

Sci. agric. (Piracicaba, Braz.)

View full text Add to dashboard Cite

Woolly apple aphid (WAA; Eriosoma lanigerum Hausm.) is a major insect pest that has significant economic impact on apple growers worldwide. Modern breeding technologies rely on several molecular tools to help breeders select genetic determinants for traits of interest.Consequently, there is a need for specific markers linked to the genes of interest. Apple scions and rootstocks have an additional barrier to the introduction of pest resistance genes due to the presence of self-incompatibility S-RNase alleles. The genetic characterization and early identification of these alleles can amplify the contribution of a breeding program to the selection of resistant genitors that are as compatible as possible. In this study, we identified the Er1 gene involved in the resistance to WAA in Malus prunifolia var. ringo, also known as 'Maruba Kaido' rootstock, and we analyzed the inheritance pattern of the WAA resistance Er1 gene in a segregant population derived from Malus pumila 'M.9' and 'Maruba Kaido' rootstocks. The self-incompatibility of S-RNase alleles S 6 S 26 of 'Maruba Kaido' were also identified along with their inheritance pattern.We also confirmed the identification of the S 1 S 3 alleles in the 'M.9' rootstock. To the best of our knowledge, this is the first study to characterize WAA resistance and RNase S-alleles in 'Maruba Kaido'. Furthermore, we discuss the potential use of the genetic markers for these genes and their potential impact on apple breeding programs.

show abstract

Genotyping of pedigreed apple breeding material with a genome-covering set of SSRs: trueness-to-type of cultivars and their parentages

Cited by 76 publications

References 15 publications

Genetic diversity of Czech apple cultivars inferred from microsatellite markers analysis

Genetic diversity of Czech apple cultivars inferred from microsatellite markers analysis

Two QTL characterized for soft scald and soggy breakdown in apple (Malus × domestica) through pedigree-based analysis of a large population of interconnected families

Identification of the Er1 resistence gene and RNase S-alleles in Malus prunifolia var. ringo rootstock

Contact Info

Product

Resources

About