ArticleNature genetics2024
Near-gapless and haplotype-resolved apple genomes provide insights into the genetic basis of rootstock-induced dwarfing.
Article in Nature genetics, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 36 papers.
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Who cites it
36 citing papers in PubMed, 53 citations in OpenAlex.
- A high-quality haplotype-resolved genome of Pyrus calleryana provides insights into adaptive gene families.The plant genome · 2026Article
- A portable recalibration workflow for reference-based variant calling in non-human genomes.PLoS computational biology · 2026Article
- Integrated multi-omics analysis reveals the molecular mechanism underlying poplar 107 rootstock-mediated regulation ofHorticulture research · 2026Article
- Haplotype-phased 'Ottawa 3' genome unravels differential reaction of apple rootstock roots to mixed viral infection.The Plant journal : for cell and molecular biology · 2026Article
- Allele-specific chromatin dynamics underpin heterosis and shoot development in hybrid poplar 'Nanlin895'.Plant molecular biology · 2026Article
- Haplotype-resolved chromosome-level genome assemblies of nineteen apple (Malus domestica Borkh.) cultivars.Scientific data · 2026Article
- Acceleration of flowering in woody plants by grafting.Plant cell reports · 2026Review
- The Camellia sinensis var. sinensis cv. Fuding Dabaicha genome unveils structural variation-driven metabolic innovation.Nature communications · 2026Article
- Phylogenomic profile of exon-intron organization across angiosperms, their relationships with protein domains, and functional implications.Nature communications · 2026Article
- Graft compatibility emerges from the balance between regeneration and immunity: lessons from plant-plant interactions.Frontiers in plant science · 2026Review
- Screening olour mango half-sib progenies for dwarfing, vigour, and climate resilience.Scientific reports · 2025Article
- Rootstock of distant hybrid activates transcription factors of scion cultivar to promote growth and yield in walnut.Plant biotechnology journal · 2025Article
- Convergent domestication of bitter apples and pears by selecting mutations of MYB transcription factors to reduce proanthocyanidin levels.Molecular horticulture · 2025Article
- A telomere-to-telomere gap-free assembly integrating multi-omics uncovers the genetic mechanism of fruit quality and important agronomic trait associations in pomegranate.Plant biotechnology journal · 2025Article
- Haplotype-resolved chromosomal-level genome assembly of Prunus mahaleb.Scientific data · 2025Article
- Colora: a Snakemake workflow for complete chromosome-scale de novo genome assembly.Bioinformatics (Oxford, England) · 2025Article
- Pan-genome analysis reveals the evolution and diversity of Malus.Nature genetics · 2025Article
- The biology of grafting and its applications in studying information exchange between plants.Nature plants · 2025Review
- Rootstock Breeding of Stone Fruits Under Modern Cultivation Regime: Current Status and Perspectives.Plants (Basel, Switzerland) · 2025Review
- A Segregating Structural Variant Defines Novel Venom Phenotypes in the Eastern Diamondback Rattlesnake.Molecular biology and evolution · 2025Article
Corrections and comments
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Authors and funding
22 authors at 9 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Dwarfing rootstocks have transformed the production of cultivated apples; however, the genetic basis of rootstock-induced dwarfing remains largely unclear. We have assembled chromosome-level, near-gapless and haplotype-resolved genomes for the popular dwarfing rootstock 'M9', the semi-vigorous rootstock 'MM106' and 'Fuji', one of the most commonly grown apple cultivars. The apple orthologue of auxin response factor 3 (MdARF3) is in the Dw1 region of 'M9', the major locus for rootstock-induced dwarfing. Comparing 'M9' and 'MM106' genomes revealed a 9,723-bp allele-specific long terminal repeat retrotransposon/gypsy insertion, DwTE, located upstream of MdARF3. DwTE is cosegregated with the dwarfing trait in two segregating populations, suggesting its prospective utility in future dwarfing rootstock breeding. In addition, our pipeline discovered mobile mRNAs that may contribute to the development of dwarfed scion architecture. Our research provides valuable genomic resources and applicable methodology, which have the potential to accelerate breeding dwarfing rootstocks for apple and other perennial woody fruit trees.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.