A5101400912- Photosynthetic Processes and Mechanisms
- Plant Stress Responses and Tolerance
- Genomics and Phylogenetic Studies
- Bioinformatics and Genomic Networks
- Plant Gene Expression Analysis
- Computational Drug Discovery Methods
- Plant tissue culture and regeneration
- Machine Learning in Bioinformatics
- Plant biochemistry and biosynthesis
- Chromosomal and Genetic Variations
- Insect-Plant Interactions and Control
- Plant Molecular Biology Research
- Plant Virus Research Studies
- Plant responses to water stress
- Genetic Mapping and Diversity in Plants and Animals
- Plant Parasitism and Resistance
- Carcinogens and Genotoxicity Assessment
- Cancer-related Molecular Pathways
- Heat shock proteins research
- Epigenetics and DNA Methylation
- Protein Structure and Dynamics
- RNA modifications and cancer
- Plant-Microbe Interactions and Immunity
- Plant Ecology and Taxonomy Studies
- Circular RNAs in diseases
Institute of Vegetables and Flowers
2022-2025
Chinese Academy of Agricultural Sciences
2022-2025
Northern Jiangsu People's Hospital
2024
China National Rice Research Institute
2023
Hubei University
2022
Shandong First Medical University
2019
Nanjing Agricultural University
2013-2016
Harbin Institute of Technology
2016
Central South University
2012-2015
Hunan Agricultural University
2012-2015
Abstract The Brassicaceae is an important plant family. We built a user-friendly, web-based, comparative, and functional genomic database, Genome Resource (TBGR, http://www.tbgr.org.cn), based on 82 released genomes from 27 species. TBGR database contains large number of genes, including 4,096 glucosinolate 6,625 auxin 13,805 flowering 36,632 resistance 1,939 anthocyanin 1,231 m6A genes. A total 1,174,049 specific guide sequences for clustered regularly interspaced short palindromic repeats...
The whitefly Bemisia tabaci is a piercing-sucking herbivore that reduces the yields of crops both by feeding on plants and transmitting plant viruses. Like most feeders, B. has evolved ways to avoid defence responses. For example, known secrete salivary effectors suppress host defences. However, nature not completely understood. In this study, we used genomic gland transcriptomic data an overexpression system identify previously unknown effector, BtE3. BtE3 specifically expressed in head...
Abstract Vegetables are an indispensable part of the daily diet humans. Therefore, it is vital to systematically study genomic data vegetables and build a platform for sharing analysis. In this study, comprehensive with user-friendly Web interface—The Vegetable Information Resource (TVIR, http://tvir.bio2db.com)—was built based on genomes 59 vegetables. TVIR database contains numerous important functional genes, including 5215 auxin 2437 anthocyanin 15 002 flowering 79 830 resistance 2639...
Various evidences have demonstrated that functional modules are overlapping and hierarchically organized in protein-protein interaction (PPI) networks. Up to now, few methods able identify both hierarchical PPI In this paper, a new clustering algorithm, called OH-PIN, is proposed based on the M_clusters, λ-module, concept of coefficient between two clusters. By recursively merging clusters with maximum coefficient, OH-PIN finally assembles all M_clusters into λ -modules. Since overlapping,...
Tomato yellow leaf curl virus (TYLCV), a devastating pathogen of tomato crops, is vectored by the whitefly Bemisia tabaci , yet mechanisms underlying TYLVC epidemics are poorly understood. We found that TYLCV triggers up-regulation two β-myrcene biosynthesis genes in tomato, leading to attraction nonviruliferous B. . also identified BtMEDOR6 as key olfactory receptor involved distinct preference MED for TYLCV-infected plants. inhibits expression BtMEDOR6, canceling this and thereby...
Heterosis and polyploidy have an overwhelming influence on plant evolution. Recently, polyploid rice hybrids been used to breed new varieties because they combine the advantages of both heterosis polyploidy. In this study, we generated six lines: autotetraploid their parents, diploid donors, donors. To investigate molecular mechanism controlling effects hybridization polyploidization, performed bisulfite RNA sequencing young panicles at pollen meiosis stage compare DNA metabolomes...
Identifying protein complexes is crucial to understanding principles of cellular organization and functional mechanisms. As many evidences have indicated that the subgraphs with high density or modularity in PPI network usually correspond complexes, detection methods based on focused subgraph's its network. However, dense may low subgraph density, which results be density-based are difficult mine modularity-based modularity, both two limitation for identifying various modularity.To identify...
Most computational methods for identifying essential proteins focus on the topological centrality of protein-protein interaction (PPI) networks. However, these have limitations, such as difficulty with low values and poor performance incomplete PPI network. In this paper, protein complex is proven to be an important factor determining essentiality a new measure, centrality, proposed. The weighted average subgraph called harmonic (HC), proposed predict proteins. It combines network topology...
Ascorbic acid (AsA) is an important antioxidant in plants and essential vitamin for humans. Extending the study of AsA-related genes from Arabidopsis thaliana to Brassica rapa could shed light on evolution AsA inform crop breeding. In this study, we conducted whole-genome annotation, molecular-evolution gene-expression analyses all known B. rapa. The nucleobase–ascorbate transporter (NAT) gene family l-galactose pathway were also compared among plant species. Four insights gained are that:...
Increasing evidences indicated that function annotation of human genome in molecular level and phenotype is very important for systematic analysis genes. In this study, we presented a framework named Gene2Function to annotate Gene Reference into Functions (GeneRIFs), which each functional description GeneRIFs could be annotated by text mining tool Open Biomedical Annotator (OBA), Entrez gene mapped Human Genome Organisation Nomenclature Committee (HGNC) symbol. After annotating all the...
Ascorbic acid (AsA) participates in diverse biological processes, is regulated by multiple factors and a potent antioxidant cellular reductant. The D-Mannose/L-Galactose pathway major plant AsA biosynthetic that highly connected within networks, generally conserved across plants. Previous work has shown that, although most genes of this are expressed under standard growth conditions Brassica rapa, some paralogs these not. We hypothesize regulatory evolution duplicate occurred as an...
Doubled haploid (DH) technology is an efficient strategy for producing completely homozygous lines breeding programs. Mutations in the MATRILINEAL (MTL) phospholipase trigger intraspecific induction cereals. Although vivo system based on OsMTL-edited plants has been established rice (Oryza sativa), DH still limited by other factors, such as identification, which one of essential steps required technology. In study, we addressed this technical challenge integrating specific molecular and...