A5065269839- Chromosomal and Genetic Variations
- Single-cell and spatial transcriptomics
- Genomics and Phylogenetic Studies
- Plant Molecular Biology Research
- Bioinformatics and Genomic Networks
- Plant Genetic and Mutation Studies
- Genetic and Environmental Crop Studies
- Plant Pathogens and Fungal Diseases
- Horticultural and Viticultural Research
- Plant tissue culture and regeneration
- Metabolomics and Mass Spectrometry Studies
- Cancer-related molecular mechanisms research
- Nuts composition and effects
- Plant Gene Expression Analysis
- Bryophyte Studies and Records
- Yeasts and Rust Fungi Studies
- Plant Stress Responses and Tolerance
- Microbial Metabolic Engineering and Bioproduction
- Marine Sponges and Natural Products
- Bioactive Natural Diterpenoids Research
- Telomeres, Telomerase, and Senescence
- Ferroptosis and cancer prognosis
- Biological Control of Invasive Species
- Ovarian cancer diagnosis and treatment
- Botany and Plant Ecology Studies
Peking University
2024-2025
Weifang University of Science and Technology
2024
Shandong Academy of Agricultural Sciences
2024
Great Bay University
2024
Instituto de Ciencias Agrarias
2024
Northwest University
2019-2021
Ministry of Education of the People's Republic of China
2020-2021
Chili pepper (Capsicum) is known for its unique fruit pungency due to the presence of capsaicinoids. The evolutionary history capsaicinoid biosynthesis and mechanism their tissue specificity remain obscure lack high-quality Capsicum genomes. Here, we report two telomere-to-telomere (T2T) gap-free genomes C. annuum wild nonpungent relative rhomboideum investigate evolution in chili peppers. We precisely delineate centromeres, which high-copy tandem repeats but are extensively invaded by CRM...
Chinese motherwort (Leonurus japonicus), a member of Lamiaceae family, is commonly used medicinal herb for treating obstetrical and gynecological diseases, producing over 280 officinal natural products. Due to limited genomic resources, little progress has been made in deciphering the biosynthetic pathway valuable products L. japonicus. Here, we de novo assembled japonicus genome using high-coverage ONT long reads Hi-C reads. The chromosome-level assembly contained ten chromosomes...
<title>Abstract</title> Centromere paradox where functionally conserved centromeres exhibit rapid evolution has long intrigued geneticists and evolutionary biologists. Despite its importance, centromeric landscape remains poorly understood due to assembling challenge. Here, we dissect the dynamic of <italic>Brassica</italic> by generating telomere-to-telomere assemblies from seven morphotypes <italic>B. rapa</italic> (AA) two tetroploids juncea</italic> (AABB) napus</italic> (AACC)....
The NAC proteins form one of the largest families plant-specific transcription factors (TFs) and play essential roles in developmental processes stress responses. In this study, we characterized a domain factor, OoNAC72, from legume Oxytropis ochrocephala. OoNAC72 was proved to be localized nuclei tobacco lower epidermal cells had transcriptional activation activity yeast, confirming its activity. expression could induced by drought, salinity exogenous abscisic acid (ABA) O. ochrocephala...
Grapevine (Vitis) is the oldest domesticated fruit crop with great cultural and economic importance. Here, we assemble annotate haplotype-resolved genomes of 72 Vitis accessions including 25 wild 47 cultivated grapevines, a complete genome V. vinifera. Coalescent phylogenomics 142 haplotype disentangles mysterious hybridization history revealing enormous genetic diversity among species. Pangenome analysis together phenotyping data reveals that European cultivars, more susceptible to most...
Lettuce (Lactuca sativa L.) is an annual plant of the Asteraceae family, commonly used as a fresh-cut vegetable and primary ingredient in salads. It rich vitamins, minerals, polyphenols, carotenoids, providing numerous health benefits. In 2021, lettuce achieved gross production value $16.6 billion worldwide, with China, United States, Western Europe leading producers (Food Agriculture, 2023Food AgricultureOrganization Nations. FAOSTAT, Rome2023Google Scholar). Most cultivated varieties are...
Spatial multi-modal omics technology, highlighted by Nature Methods as an advanced biological technique in 2023, plays a critical role resolving regulatory processes with spatial context. Recently, graph neural networks based on K-nearest neighbor (KNN) graphs have gained prominence methods due to their ability model semantic relations between sequencing spots. However, the fixed KNN fails capture latent hidden inevitable data perturbations during process, resulting loss of information. In...
<title>Abstract</title> Chili pepper (<italic>Capsicum</italic>), one of oldest domesticated crops in human history, is best known for its unique fruit pungency given by capsaicinoids. The evolutionary history capsaicinoid biosynthesis and the mechanism tissue-specificity remain obscured due to lack high-quality <italic>Capsicum </italic>genomes. Here, we assembled two telomere-to-telomere (T2T) gap-free genomes <italic>C. annuum</italic> wild non-pungent relative rhomboideum</italic>...
<title>Abstract</title> <italic>Nicotiana benthamiana</italic> is a model organism widely adopted in plant biology and biotechnology. Its genomic research has lagged since its initial release 2012. To further improve usefulness, we generate phase the complete 2.85 Gb genome assembly of allotetraploid <italic>N. with all 19 centromeres 38 telomeres fully resolved. We find that although <italic>Solanaceae</italic>centromeres are dominated by Ty3/Gypsy retrotransposons, satellite-based...
Sepsis is a life-threatening condition characterized by an exaggerated immune response to pathogens, leading organ damage and high mortality rates in the intensive care unit. Although deep learning has achieved impressive performance on prediction classification tasks medicine, it requires large amounts of data lacks explainability, which hinder its application sepsis diagnosis. We introduce framework, called scCaT, blends capsulating architecture with Transformer develop diagnostic model...
Abstract Sepsis is a life-threatening condition characterized by an exaggerated immune response to pathogens, leading organ damage and high mortality rates in the intensive care unit. Although deep learning has achieved impressive performance on prediction classification tasks medicine, it requires large amounts of data lacks explainability, which hinder its application sepsis diagnosis. We introduce framework, called scCaT, blends capsulating architecture with Transformer develop diagnostic...
Fusarium oxysporum is an asexual filamentous fungus that causes vascular wilt in hundreds of crop plants and poses a threat to public health through Fusariosis. F. f. sp. conglutinans strain Fo5176, originally isolated from Brassica oleracea, pathogenic Arabidopsis, making it model pathosystem for dissecting the molecular mechanisms underlying host-pathogen interactions. Assembling genome notoriously challenging due presence repeat-rich accessory chromosomes. Here, we report gap-free...
Abstract Multimodal omics provide deeper insight into the biological processes and cellular functions, especially transcriptomics proteomics. Computational methods have been proposed for integration of single-cell multimodal However, existing primarily concentrate on alignment different omics, overlooking unique information inherent in each type. Moreover, as majority cohorts only encompass one it becomes critical to transfer knowledge learnt from enhance unimodal analysis. Therefore, we a...
Abstract Lettuce ( Lactuca sativa L.) is a globally grown vegetable crop as the most popular salad ingredient. breeding crucial to enhancing yield, nutrition and disease resistance, but impeded by lacking high-quality genome resource. In addition, released genomes remain fragmented (with hundreds of gaps) incomplete with omitting pivotal centromeres telomeres. Here, we report 2.59 Gb complete telomere-to-telomere (T2T) assembly for lettuce. T2T analysis revealed unique genetic epigenetic...
Single-cell multi-omics (scMulti-omics) refers to the paired multimodal data, such as Cellular Indexing of Transcriptomes and Epitopes by Sequencing (CITE-seq), where regulation each cell was measured from different modalities, i.e. genes proteins. scMulti-omics can reveal heterogeneity inside tumors understand distinct genetic properties diverse types, which is crucial targeted therapy. Currently, deep learning methods based on attention structures in bioinformatics area face two...