A5067989234- Plant biochemistry and biosynthesis
- Genomics and Phylogenetic Studies
- Plant Gene Expression Analysis
- Chromosomal and Genetic Variations
- Plant Virus Research Studies
- Genetic diversity and population structure
- Plant Pathogens and Fungal Diseases
- Genetic and Clinical Aspects of Sex Determination and Chromosomal Abnormalities
- Plant and Fungal Interactions Research
- Biofuel production and bioconversion
- Plant and animal studies
- Legume Nitrogen Fixing Symbiosis
- Plant nutrient uptake and metabolism
- Ecology and Vegetation Dynamics Studies
- Plant Pathogenic Bacteria Studies
- Neuroinflammation and Neurodegeneration Mechanisms
- Agriculture and Biological Studies
- Cassava research and cyanide
- Genetic Mapping and Diversity in Plants and Animals
- Microbial Natural Products and Biosynthesis
- Nematode management and characterization studies
- Lipid metabolism and biosynthesis
- melanin and skin pigmentation
- Natural product bioactivities and synthesis
- Tryptophan and brain disorders
Fudan University
2025
Beijing Forestry University
2020-2024
State Key Laboratory of Tree Genetics and Breeding
2023-2024
Research Institute of Forestry
2024
Abstract Azaleas (Ericaceae) comprise one of the most diverse ornamental plants, renowned for their cultural and economic importance. We present a chromosome-scale genome assembly Rhododendron simsii , primary ancestor azalea cultivars. Genome analyses unveil remnants an ancient whole-genome duplication preceding radiation Ericaceae, likely contributing to genomic architecture flowering time. Small-scale gene duplications contribute expansion families involved in pigment biosynthesis....
Abstract Poplar (Populus) is a well-established model system for tree genomics and molecular breeding, hybrid poplar widely used in forest plantations. However, distinguishing its diploid homologous chromosomes difficult, complicating advanced functional studies on specific alleles. In this study, we applied trio-binning design PacBio high-fidelity long-read sequencing to obtain haplotype-phased telomere-to-telomere genome assemblies the 2 parents of well-studied F1 “84K” (Populus alba ×...
Abstract In patients with major depressive disorder (MDD) and animal models of depression, key pathological hallmarks include activation microglia as well atrophy loss astrocytes. Under certain conditions, can inflict damage to neurons However, the precise mechanisms underlying how activated induced astrocyte remain enigmatic. this study, a depression model by chronic social defeat stress (CSDS) is utilized. The results show that CSDS induces significant anxiety‐ depression‐like behaviors,...
Abstract Ginger (Zingiber officinale) is one of the most valued spice plants worldwide; it prized for its culinary and folk medicinal applications therefore high economic cultural importance. Here, we present a haplotype-resolved, chromosome-scale assembly diploid ginger anchored to 11 pseudochromosome pairs with total length 3.1 Gb. Remarkable structural variation was identified between haplotypes, two inversions larger than 15 Mb on chromosome 4 may be associated infertility. We performed...
Abstract Sex determination systems in plants can involve either female or male heterogamety (ZW XY, respectively). Here we used Illumina short reads, Oxford Nanopore Technologies (ONT) long reads and Hi‐C to assemble the first chromosome‐scale genome of a willow tree ( Salix dunnii ), predict genes using transcriptome sequences available databases. The final sequence 328 Mb total was assembled 29 scaffolds, includes 31,501 predicted genes. Analyses short‐read data that included suggested...
Abstract Polyploidization plays a key role in plant evolution, but the forces driving fate of homoeologs polyploid genomes, i.e., paralogs resulting from whole-genome duplication (WGD) event, remain to be elucidated. Here, we present chromosome-scale genome assembly tetraploid scarlet sage ( Salvia splendens ), one most diverse ornamental plants. We found evidence for three WGD events following an older event shared by eudicots (the γ event). A comprehensive, spatiotemporal, genome-wide...
The genus Rhododendron (Ericaceae), with more than 1000 species highly diverse in flower color, is providing distinct ornamental values and a model system for color studies. Here, we investigated the divergence between two parental different widely used azalea breeding. Gapless genome assembly was generated yellow-flowered azalea, molle. Comparative genomics found recent proliferation of long terminal repeat retrotransposons (LTR-RTs), especially Gypsy, has resulted 125 Mb (19%) size...
Color change during flower opening is common; however, little understood on the biochemical and molecular basis related. Lilac (Syringa oblata), a well-known woody ornamental plant with obvious petal color changes, an ideal model. Here, we presented chromosome-scale genome assembly for lilac, resolved flavonoids metabolism, identified key genes potential regulatory networks related to change. The 1.05 Gb anchored onto 23 chromosomes, BUSCO score of 96.6%. Whole-genome duplication (WGD) event...
The high biosynthetic and energetic demands of floral thermogenesis render thermogenic plants the ideal systems to characterize energy metabolism in plants, but real-time tracking plant cells remains challenging. In this study, a new method was developed for mitochondrial at single mitochondria level by imaging superoxide production (i.e., mitoflash). Using method, we observed increased mitoflash frequencies receptacles Nelumbo nucifera Gaertn. stages. This increase, combined with higher...
Terpenes and terpenoids are key natural compounds for plant defense, development, composition of oil. The synthesis accumulation a myriad volatile terpenoid in these plants may dramatically alter the quality flavor oils, which provide great commercial utilization value oil-producing plants. Terpene synthases (TPSs) important enzymes responsible terpenic diversity. Investigating differentiation TPS gene family could valuable theoretical support genetic improvement While origin function genes...
Long non-coding RNAs (lncRNAs) play essential roles in various biological processes, such as chromatin remodeling, post-transcriptional regulation, and epigenetic modifications. Despite their critical functions regulating plant growth, root development, seed dormancy, the identification of lncRNAs remains a challenge due to scarcity specific extensively tested methods. Most mainstream machine learning-based methods used for lncRNA were initially developed using human or other animal...
Xanthoceras sorbifolium (yellowhorn) is a woody oil plant with super stress resistance and excellent characteristics. The yellowhorn can be used as biofuel edible high nutritional medicinal value. However, genetic studies on are just in the beginning, fundamental biological questions regarding its very long-chain fatty acid (VLCFA) biosynthesis pathway remain largely unknown. In this study, we reconstructed VLCFA annotated 137 genes encoding relevant enzymes. We identified four oleosin that...
In-depth genome characterization is still lacking for most of biofuel crops, especially centromeres, which play a fundamental role during nuclear division and in the maintenance stability. This study applied long-read sequencing technologies to assemble highly contiguous yellowhorn (Xanthoceras sorbifolium), an oil-producing tree, conducted extensive comparative analyses understand centromere structure evolution, fatty acid biosynthesis. We produced reference-level yellowhorn, ∼470 Mb length...
The genus <italic>Rhododendron</italic> exhibits an immense diversity of flower colors and represents one the largest groups woody plants, which is great importance for ornamental plant research. This review summarizes recent progress in deciphering genetic basis coloration <italic>Rhododendron</italic>. We describe advances phylogenetic reconstruction genome sequencing species. metabolic pathways color are outlined, focusing on key structural regulatory genes involved pigment synthesis....
Abstract Coriaria nepalensis Wall. (Coriariaceae) is a nitrogen-fixing shrub which forms root nodules with the actinomycete Frankia . Oils and extracts of C. have been reported to be bacteriostatic insecticidal, bark provides valuable tannin resource. Here, by combining PacBio HiFi sequencing Hi-C scaffolding techniques, we generated haplotype-resolved chromosome-scale genome assembly for This approximately 620 Mb in size contig N50 11 Mb, 99.9% total assembled sequences anchored 40...
Salvia splendens, scarlet or tropical sage, is a tender perennial herbaceous flowering plant popularly grown in public and private gardens all over the world. In this study, we developed set of simple sequence repeats (SSRs) from genome-wide sequences to assess genetic diversity population structure among 112 cultivars. We obtained 364,379 SSR markers by mining sage's recently published whole genome sequence; 14,545 genic loci were identified 2 kb gene flanking regions. Among 768 primer sets...
Abstract Sex determination systems in plants can involve either female or male heterogamety (ZW XY, respectively). Here we used Illumina short reads, Oxford Nanopore Technologies (ONT) long and Hi-C reads to assemble the first chromosome-scale genome of a willow tree ( Salix dunnii ), predict genes using transcriptome sequences available databases. The final sequence 328 Mb total was assembled 29 contigs, includes 31,501 genes. We inferred heterogametic sex determining factor on chromosome...
The genetic efficiency of seed orchards is crucial for determining crops’ gain and diversity. Platycladus orientalis a conifer tree important ecological value in China. Here, we assessed the reproductive output (fertility) variation 166 clones first-generation P. orchard over five years across three each gender (female: 2017, 2018, 2020 male: 2019, 2021). Fertility diversity parameters were estimated gender-year combination. differed among years, provinces, nested within ramets clones. We...
Wood decay resistance (WDR) is marking the value of wood utilization. Many trees Lauraceae have exceptional WDR, as evidenced by their use in ancient royal palace buildings China. However, genetics WDR remain elusive. Here, through comparative genomics, we revealed unique characteristics related to high trees. We present a 1.27-Gb chromosome-level assembly for Lindera megaphylla (Lauraceae). Comparative genomics integrating major groups angiosperm species extensively shared gene microsynteny...