ArticleScientific data2024
A haplotype-resolved genome provides insight into allele-specific expression in wild walnut (Juglans regia L.).
Article in Scientific data, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.
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10 citing papers in PubMed.
- The Pan-Plastome of Walnuts (International journal of molecular sciences · 2026Article
- Haplotype-resolved genome assembly of a male Dioscorea alata cultivar reveals the structure and evolution of young sex chromosomes.The Plant journal : for cell and molecular biology · 2026Article
- Comparative Transcriptome Analysis of Walnuts (Plants (Basel, Switzerland) · 2025Article
- Genomic insights into genome-wide heterozygosity and its impact on walnut adaptive evolution and improvement.Molecular breeding : new strategies in plant improvement · 2025Article
- Genetic Mechanisms and Adaptive Benefits of Anthocyanin Red Stigmas in a Wind-Pollinated Tree.Molecular biology and evolution · 2025Article
- Pangeneric genome analyses reveal the evolution and diversity of the orchid genus Dendrobium.Nature plants · 2025Article
- Chromosome-Level Genome Assembly and Annotation of the Highly HeterozygousJournal of fungi (Basel, Switzerland) · 2025Article
- Genetic analysis of wild walnuts in Xinjiang based on whole-genome resequencing.Frontiers in plant science · 2025Article
- Complete mitochondrial genome assembly of Juglans regia unveiled its molecular characteristics, genome evolution, and phylogenetic implications.BMC genomics · 2024Article
- A haplotype-resolved genome provides insight into allele-specific expression in wild walnut (Juglans regia L.).Scientific data · 2024Article
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6 authors.
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Abstract
Wild germplasm resources are crucial for gene mining and molecular breeding because of their special trait performance. Haplotype-resolved genome is an ideal solution for fully understanding the biology of subgenomes in highly heterozygous species. Here, we surveyed the genome of a wild walnut tree from Gongliu County, Xinjiang, China, and generated a haplotype-resolved reference genome of 562.99 Mb (contig N50 = 34.10 Mb) for one haplotype (hap1) and 561.07 Mb (contig N50 = 33.91 Mb) for another haplotype (hap2) using PacBio high-fidelity (HiFi) reads and Hi-C technology. Approximately 527.20 Mb (93.64%) of hap1 and 526.40 Mb (93.82%) of hap2 were assigned to 16 pseudochromosomes. A total of 41039 and 39744 protein-coding gene models were predicted for hap1 and hap2, respectively. Moreover, 123 structural variations (SVs) were identified between the two haplotype genomes. Allele-specific expression genes (ASEGs) that respond to cold stress were ultimately identified. These datasets can be used to study subgenome evolution, for functional elite gene mining and to discover the transcriptional basis of specific traits related to environmental adaptation in wild walnut.
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