A5091845139- Single-cell and spatial transcriptomics
- Plant Molecular Biology Research
- Photosynthetic Processes and Mechanisms
- Viral Infections and Vectors
- Animal Disease Management and Epidemiology
- Vector-Borne Animal Diseases
- Genomics and Phylogenetic Studies
- CRISPR and Genetic Engineering
- Plant Stress Responses and Tolerance
- Influenza Virus Research Studies
- Animal Virus Infections Studies
- GABA and Rice Research
- Plant Gene Expression Analysis
- Gene expression and cancer classification
- Plant tissue culture and regeneration
- Soybean genetics and cultivation
- Genetic Mapping and Diversity in Plants and Animals
- Potato Plant Research
- Plant Reproductive Biology
- Environmental and Agricultural Sciences
- Chromosomal and Genetic Variations
- Algal biology and biofuel production
- Bioinformatics and Genomic Networks
- Virus-based gene therapy research
- Neuroinflammation and Neurodegeneration Mechanisms
China National GeneBank
2020-2025
BGI Research
2023-2025
Xinjiang Academy of Agricultural Sciences
2016-2025
BGI Group (China)
2020-2025
First Affiliated Hospital of Gannan Medical University
2025
Xinjiang Agricultural University
2022-2025
Botswana Geoscience Institute
2025
Fujian Agriculture and Forestry University
2022-2024
Agricultural Genomics Institute at Shenzhen
2024
Shanxi Agricultural University
2024
Abstract With the application and development of high-throughput sequencing technology in life health sciences, massive multi-omics data brings problem efficient management utilization. Database biocuration are prerequisites for reuse these big data. Here, relying on China National GeneBank (CNGB), we present CNGB Sequence Archive (CNSA) archiving omics data, including raw its further analyzed results which organized into six objects, namely Project, Sample, Experiment, Run, Assembly...
Quickly and precisely gain genetically enhanced breeding elites with value-adding performance traits is desired by the crop breeders all time. The present of gene editing technologies, especially CRISPR/Cas9 system capacities efficiency, versatility multiplexing provides a reasonable expectation towards goals. For exploiting possible application to accelerate speed process at technology, in this study, Agrobacterium tumefaciens-mediated transformation method was used for obtaining tomato ALC...
The molecular mechanism underlying brain regeneration in vertebrates remains elusive. We performed spatial enhanced resolution omics sequencing (Stereo-seq) to capture spatially resolved single-cell transcriptomes of axolotl telencephalon sections during development and regeneration. Annotated cell types exhibited distinct distribution, features, functions. identified an injury-induced ependymoglial cluster at the wound site as a progenitor population for potential replenishment lost...
Effective utilization of wild relatives is key to overcoming challenges in genetic improvement cultivated tomato, which has a narrow basis; however, current efforts decipher high-quality genomes for tomato species are insufficient. Here, we report chromosome-scale from nine and two accessions, representative Solanum section Lycopersicon, the clade. Together with previously released genomes, elucidate phylogeny Lycopersicon construct section-wide gene repertoire. We reveal landscape...
Drosophila has long been a successful model organism in multiple biomedical fields. Spatial gene expression patterns are critical for the understanding of complex pathways and interactions, whereas temporal changes vital studying highly dynamic physiological activities. Systematic studies still impeded by lack spatiotemporal transcriptomic information. Here, utilizing spatial enhanced resolution omics-sequencing (Stereo-seq), we dissected developing with high sensitivity. We demonstrated...
A major challenge in understanding vertebrate embryogenesis is the lack of topographical transcriptomic information that can help correlate microenvironmental cues within hierarchy cell-fate decisions. Here, we employed Stereo-seq to profile 91 zebrafish embryo sections covering six critical time points during first 24 h development, obtaining a total 152,977 spots at resolution 10 × 15 μm3 (close cellular size) with spatial coordinates. Meanwhile, identified modules and co-varying genes for...
Abstract Recent technological developments in spatial transcriptomics allow researchers to measure gene expression of cells and their locations at the single-cell level, generating detailed biological insight into processes. A comprehensive database could facilitate sharing transcriptomic data streamline acquisition process for researchers. Here, we present Spatial TranscriptOmics DataBase (STOmicsDB), a that serves as one-stop hub transcriptomics. STOmicsDB integrates 218 manually curated...
This paper provides recommendations of one name for use among pleomorphic genera in Dothideomycetes by the Working Group on established under auspices International Commission Taxonomy Fungi (ICTF). A number these generic names are proposed protection because they do not have priority and/or selected is asexually typified. These include: Acrogenospora over Farlowiella; Alternaria Allewia, Lewia, and Crivellia; Botryosphaeria Fusicoccum; Camarosporula Anthracostroma; Capnodium Polychaeton;...
Culture-independent metagenomic studies have revolutionized our understanding of the gut microbiota. However, lack full genomes from cultured species is still a limitation for in-depth Here we present substantially expanded version Cultivated Genome Reference (CGR), termed CGR2, providing 3324 high-quality draft isolates selected large-scale cultivation bacterial fecal samples healthy Chinese individuals. The CGR2 classifies 527 (179 previously unidentified species) 8 phyla, and uncovers...
Abstract Human cancer cell lines have long served as tools for research and drug discovery, but the presence source of intra-cell-line heterogeneity remain elusive. Here, we perform single-cell RNA-sequencing ATAC-sequencing on 42 39 human lines, respectively, to illustrate both transcriptomic epigenetic within individual lines. Our data reveal that is frequently observed in different tissue origins, often driven by multiple common transcriptional programs. Copy number variation, well...
The hypothalamus plays a crucial role in the progression of obesity and diabetes; however, its structural complexity cellular heterogeneity impede targeted treatments. Here, we profiled single-cell spatial transcriptome obese sporadic type 2 diabetic macaques, revealing primate-specific distributions clusters genes as well region, cell-type-, gene-feature-specific changes. infundibular (INF) paraventricular nuclei (PVN) are most susceptible to metabolic disruption, with PVN being more...
The molecular and cellular organization of the primate cerebellum remains poorly characterized. We obtained single-cell spatial transcriptomic atlases macaque, marmoset, mouse cerebella identified primate-specific cell subtypes, including Purkinje cells molecular-layer interneurons, that show different expression glutamate ionotropic receptor Delta type subunit 2 ( GRID2 ) gene. Distinct gene profiles were found in anterior, posterior, vestibular regions all species, whereas region-selective...
Soluble sugar is known to improve the sweetness and increase tomato sauce yield. Studies have focused on improving content of soluble in fruits, usually by promoting functional genes. We studied two genes (SlINVINH1 SlVPE5) that inhibited accumulation fruits obtained genes' knocked-out lines (CRISPR-invinh1 or CRISPR-vpe5) using CRISPR/Cas9. Aggregated with CRISPR-invinh1 CRISPR-vpe5 were gained hybridization self-pollination. Compared wild-type lines, glucose, fructose, total solid (TSS)...
ABSTRACT Recent technological development in spatial transcriptomics allows researchers to measure gene expression of cells and their locations at the almost single-cell level, which generates detailed biological insight into processes. However, specialized databases are rare. Here, we present Spatial TranscriptOmics DataBase (STOmicsDB), a user-friendly database with multifunctions including search relevant publications tools, public dataset visualization, customized databases, new data...
As one of the most important vegetable crops in world, production tomatoes was restricted by salt stress. Therefore, it is great interest to analyze stress tolerance genes. non-coding RNAs (ncRNAs) with a length more than 200 nucleotides, long (lncRNAs) lack ability protein-coding, but they can play crucial roles plant development and response abiotic stresses regulating gene expression. Nevertheless, there are few studies on salt-induced lncRNAs tomatoes. we selected wild tomato
Abstract Background Late embryogenesis abundant (LEA) proteins are widely distributed in higher plants and play crucial roles regulating plant growth development processes resisting abiotic stress. Cultivated tomato ( Solanum lycopersicum ) is an important vegetable crop worldwide; however, its growth, development, yield, quality currently severely constrained by stressors. In contrast, wild species more tolerant to stress can grow normally extreme environments. The main objective of this...