Development of SNP-based assays for disease resistance and fruit quality traits in apple (Malus × domestica Borkh.) and validation in breeding pilot studies

Baumgartner, Isabelle; Kellerhals, M.; Costa, Fabrizio; Dondini, Luca; Pagliarani, Giulia; Gregori, Roberto; Tartarini, Stefano; Leumann, Lucie; Laurens, François; Patocchi, Andrea

doi:10.1007/s11295-016-0994-y

Cited by 47 publications

(30 citation statements)

References 30 publications

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“…It remains the aim of apple breeding to bring together in new varieties improvements in fruit quality + yield + resistance to different pathogens. Another new challenge is establishing a durable resistance in field cultivation, now that observations from different parts of Europe on the breakdown in the monogenic scab resistance sources from the Malus floribunda (Baumgartner et al 2016;Büttner et al 2000b;Kellerhals and Gessler 1995;Lespinasse 2001) The main breeding trends are dessert apple varieties for fresh consumption. Fruit quality is the first and foremost priority.…”

Section: Hybridization Between Speciesmentioning

confidence: 99%

“…A number of back-crossings in conventional breeding methods will be necessary to get excellent fruit quality. Biotechnological methods (markerassisted selection, gene mapping, genetic engineering, work with double haploids (DH) are possibilities for the future to help integrate resistance genes directly into susceptible varieties (Baumgartner et al 2016;Dunemann 2017;Emeriewen et al 2014;Flachowsky et al 2014). However, this work must be started with creation of a broad base of pyramiding genes for resistance to various diseases.…”

Section: Hybridization Between Speciesmentioning

confidence: 99%

“…The best of these cultivars display resistance to scab (Venturia inaequalis), mildew (Podosphaera leucotricha), fire blight (Erwinia amylovora), bacterial canker (Pseudomonas syringae), red spider mite (Panonychus ulmi), winter frost and good fruit quality. Different scab resistance sources of wild species (V f , V r , V A ) were used to combine it in the new series of cultivars (Baumgartner et al 2016;Büttner et al 2004;Fischer and Fischer 1996, 2006Kellerhals et al 2009).…”

Section: Cross-pollination To Produce Interspecific Hybridsmentioning

confidence: 99%

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Apple (Malus spp.) Breeding: Present and Future

Pereira‐Lorenzo

Fischer

Ramos‐Cabrer

et al. 2018

Advances in Plant Breeding Strategies: Fruits

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Apple breeding has been extremely successful in providing a highly diverse fruit crop. Recent (>50 millions years ago) genome-wide duplication (GWD) resulted in the 17 chromosomes in the Pyreae (Velasco et al. 2010) and confirmed the origin of cultivated apple on Malus sieversii being the same species as M. × domestica. Malus, as many other species in the family Rosaceae, shows gametophytic self-incompatibility (GSI), which forces outcrossing. GSI at the pistil is regulated by extacellular ribonuclease, S-RNase, which is encoded by S locus. Growers and agronomists have provided multiple cultivars with different colors, shapes, resistances, climatic adaptation or industrial aptitudes. The aim in apple breeding was the combination of different kinds of resistance and good fruit quality to produce dessert cultivars and cultivars for processing. Some of the best of these cultivars display resistance to scab (Venturia inaequalis), mildew (Podosphaera leucotricha), fire blight (Erwinia amylovora), bacterial canker (Pseudomonas syringae), red spider mite (Panonychus ulmi), winterfrost and good fruit quality. Different scab resistance sources of wild species (Vf, Vr, VA) were combined in the new series of cultivars. Multiple efforts worldwide have conserved most of that variation, the pillar for the traditional and new techniques profiting from the analysis of the apple genome, the genome-wide association studies (GWAS), identifying SNPs and genes, the analysis of genes differentially expressed (GDE) identified by qRT-PCR and microarray analysis, and the recent molecular genetic tool CRISPR/Cas9 to edit and correct the genome.

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Section: Hybridization Between Speciesmentioning

confidence: 99%

Section: Hybridization Between Speciesmentioning

confidence: 99%

Section: Cross-pollination To Produce Interspecific Hybridsmentioning

confidence: 99%

See 1 more Smart Citation

Apple (Malus spp.) Breeding: Present and Future

Pereira‐Lorenzo

Fischer

Ramos‐Cabrer

et al. 2018

Advances in Plant Breeding Strategies: Fruits

View full text Add to dashboard Cite

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“…Five of these recombinant individuals were already characterized by Pagliarani et al (2016), including PF_X-9504-07 belonging to the 'Perico' × 'Florina' (PF) progeny, which was conserved despite its uncertain genotype (a-) for SNP_104 due to its <ab × ab> status. Three additional recombinant plants belonging to other progenies ('Florina' × 'Royal Gala': FR; 'Florina' × 'Perleberg': FP; and 'GoldRush' × 'Discovery': GD) were also considered after Baumgartner et al (2016). Finally, a last recombinant individual (MF_7321) was identified in a 'Meana' × 'Florina' progeny (Dapena and Miñarro, unpublished results).…”

Section: Plant Materials and Phenotypic Evaluationmentioning

confidence: 99%

Identification of candidate genes at the Dp-fl locus conferring resistance against the rosy apple aphid Dysaphis plantaginea

Dall’Agata

Pagliarani

Padmarasu

et al. 2018

Tree Genetics & Genomes

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The cultivated apple is susceptible to several pests including the rosy apple aphid (RAA; Dysaphis plantaginea Passerini), control of which is mainly based on chemical treatments. A few cases of resistance to aphids have been described in apple germplasm resources, laying the basis for the development of new resistant cultivars by breeding. The cultivar 'Florina' is resistant to RAA, and recently, the Dp-fl locus responsible for its resistance was mapped on linkage group 8 of the apple genome. In this paper, a chromosome walking approach was performed by using a 'Florina' bacterial artificial chromosome (BAC) library. The walking started from the available tightly linked molecular markers flanking the resistance region. Various walking steps were performed in order to identify the minimum tiling path of BAC clones covering the Dp-fl region from both the Bresistant^and Bsusceptibleĉ hromosomes of 'Florina'. A genomic region of about 279 Kb encompassing the Dp-fl resistance locus was fully sequenced by the PacBio technology. Through the development of new polymorphic markers, the mapping interval around the resistance locus was narrowed down to a physical region of 95 Kb. The annotation of this sequence resulted in the identification of four candidate genes putatively involved in the RAA resistance response.

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“…Given the increasing public demand to reduce fungicide input, disease resistant cultivars are essential for future sustainable apple production. Genotypic information has the potential to speed up the development of resistant cultivars of superior quality (Baumgartner, et al 2016; Laurens, et al 2018; Peace, et al 2019). However, the number of available molecular markers linked to fruit quality traits is low.…”

Section: Introductionmentioning

confidence: 99%

Chromosome-scale de novo diploid assembly of the apple cultivar ‘Gala Galaxy’

Broggini

Schlathölter

Russo

et al. 2020

Preprint

Self Cite

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6Apple (Malus × domestica) is one of the most important fruit crops in terms of worldwide production. Due to its 1 7 self-incompatibility system and the long juvenile period, breeding of new apple cultivars combining traits desired 1 8 by growers (e.g. yield, pest and disease resistance) and consumers (e.g. fruit size, color, and flavor) is a long and 1 9 complex process. Genomics-assisted breeding strategies can facilitate the selection of germplasm leading to new

show abstract

Development of SNP-based assays for disease resistance and fruit quality traits in apple (Malus × domestica Borkh.) and validation in breeding pilot studies

Cited by 47 publications

References 30 publications

Apple (Malus spp.) Breeding: Present and Future

Apple (Malus spp.) Breeding: Present and Future

Identification of candidate genes at the Dp-fl locus conferring resistance against the rosy apple aphid Dysaphis plantaginea

Chromosome-scale de novo diploid assembly of the apple cultivar ‘Gala Galaxy’

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