A5008996783- Horticultural and Viticultural Research
- Fermentation and Sensory Analysis
- Plant Reproductive Biology
- Chromosomal and Genetic Variations
- Nuts composition and effects
- Plant Virus Research Studies
- Genetic Mapping and Diversity in Plants and Animals
- Genomics and Phylogenetic Studies
- Plant Physiology and Cultivation Studies
- Plant Pathogens and Fungal Diseases
- Biochemical and biochemical processes
- Plant biochemistry and biosynthesis
- Genetic and Clinical Aspects of Sex Determination and Chromosomal Abnormalities
- Wine Industry and Tourism
- Plant and Fungal Interactions Research
- Insect-Plant Interactions and Control
- Plant Gene Expression Analysis
- Cancer-related molecular mechanisms research
Agricultural Genomics Institute at Shenzhen
2023-2025
Chinese Academy of Agricultural Sciences
2023-2025
Ministry of Agriculture and Rural Affairs
2023-2025
Lanzhou University
2019-2020
Domesticated grapevines spread to Europe around 3,000 years ago. Previous studies have revealed genomic signals of introgression from wild cultivated grapes in Europe, but the time, mode, pattern, and biological effects these events not been investigated. Here, we studied resequencing data 345 samples spanning distributional range (Vitis vinifera ssp. sylvestris) (V. vinifera) grapes. Based on machine learning-based population genetic analyses, detected evidence for a single domestication...
Abstract Plant domestication are evolutionary experiments conducted by early farmers since thousands years ago, during which the crop wild progenitors artificially selected for desired agronomic traits along with dramatic genomic variation in course of moderate to severe bottlenecks. However, previous investigations mainly focused on small-effect variants, while changes gene contents rarely investigated due lack population-level assemblies both and its relatives. Here, we applied comparative...
Grapevine breeding is hindered by a limited understanding of the genetic basis complex agronomic traits. This study constructs graph-based pangenome reference (Grapepan v.1.0) from 18 newly generated phased telomere-to-telomere assemblies and 11 published assemblies. Using Grapepan v.1.0, we build variation map with 9,105,787 short variations 236,449 structural (SVs) resequencing data 466 grapevine cultivars. Integrating SVs into genome-wide association study, 148 quantitative trait loci for...
Seedlessness is a crucial quality trait in table grape (Vitis vinifera L.) breeding. However, the development of seeds involved intricate regulations, and polygenic basis seed abortion remains unclear. Here, we combine comparative genomics, population genetics, quantitative integrative genomics to unravel evolution seedlessness grapes. We generated haplotype-resolved genomes for two seedless cultivars, "Thompson Seedless" (TS, syn. "Sultania") "Black Monukka" (BM). Comparative identified...
Abstract The cultivated apple (Malus domestica Borkh.) is a cross-pollinated perennial fruit tree of great economic importance. Earlier versions reference genomes were unphased, fragmented, and lacked comprehensive insights into the apple's highly heterozygous genome, which impeded advances in genetic studies breeding programs. In this study, we assembled haplotype-resolved telomere-to-telomere (T2T) genome for diploid cultivar Golden Delicious. Subsequently, constructed pangenome based on...
Diversified reproductive systems can be observed in the plant kingdom and applied crop breeding; however, their impacts on genomic variation breeding remain unclear. Grapevine (Vitis vinifera L.), a widely planted fruit tree, underwent shift from dioecism to monoecism during domestication involves crossing, self-pollination, clonal propagation for its cultivation. In this study, we discover that types, namely, selfing, cloning, dramatically impact landscapes grapevine based comparative...
Secondary metabolites of the flavonoid pathway participate in plant defense, and bHLH MYB transcription factors regulate synthesis these metabolites. Here, we define regulatory mechanisms response to pathogens. Two from Populus alba var. pyramidalis, PalbHLH1 PalMYB90, were overexpressed together poplar, transcriptome analysis revealed differences pathogen infection. The transgenic plants showed elevated levels several key components: total phenols, proanthocyanidins (PAs) anthocyanins...
Long noncoding RNAs (lncRNAs) are involved in various biological regulatory processes, but their roles plants resistance to salt stress remain largely unknown. To systematically explore the characteristics of lncRNAs and plant responses, we conducted strand-specific RNA-sequencing four tissue types with treatments two closely related poplars (Populus euphratica Populus alba var. pyramidalis), a total 10,646 10,531 were identified, respectively. These showed significantly lower values terms...
Hemizygous genes, which are present on only one of the two homologous chromosomes diploid organisms, have been mainly studied in context sex and sex-linked genes. However, these genes can also occur autosomes plants due to structural variants (SVs), such as a deletion/insertion allele, this phenomenon largely unexplored plants. Here, we investigated genomic epigenomic landscapes hemizygous across 22 genomes with varying propagation histories: eleven clonal lineages, seven outcrossed samples,...
Hemizygous genes are present in one of the two sister chromatids diploid organisms. It comes to be known for their prevalent occurrence and vital roles sex chromosome. However, hemizygous genomes plants remain largely unexplored. In this study, we investigated features, genetic, cis- epigenetic regulations seven crops. These crops represent three clonal lineages, outcrossing species, putatively homozygous (selfed or doubled haploid) genomes. By remapping long reads primary genome assembly,...
Abstract Seedlessness is a crucial quality trait in table grape ( Vitis vinifera L.) breeding. However, the development of seeds involved intricate regulations, while polygenic basis seed abortion remains unclear. Here, we combine comparative genomics, population genetics, quantitative and integrative genomics to unravel evolution seedlessness grapes. We generated four haplotype-resolved telomere-to-telomere (T2T) genomes for two seedless cultivars, ‘Thompson Seedless’ (TS, syn. ‘Sultania’)...