A5100348939- Gut microbiota and health
- Genomics and Phylogenetic Studies
- Ruminant Nutrition and Digestive Physiology
- Probiotics and Fermented Foods
- Optical Network Technologies
- Microbial Metabolic Engineering and Bioproduction
- Plant tissue culture and regeneration
- Gene Regulatory Network Analysis
- Semiconductor Lasers and Optical Devices
- Bacteriophages and microbial interactions
- Microbial Community Ecology and Physiology
- Evolution and Genetic Dynamics
- Epigenetics and DNA Methylation
- Advanced Photonic Communication Systems
- Diet and metabolism studies
- RNA and protein synthesis mechanisms
- Protein Structure and Dynamics
- Congenital heart defects research
- Biofuel production and bioconversion
- CRISPR and Genetic Engineering
- Text and Document Classification Technologies
- Nanopore and Nanochannel Transport Studies
- Actinomycetales infections and treatment
- Industrial Vision Systems and Defect Detection
- Cell Image Analysis Techniques
Huazhong University of Science and Technology
2007-2024
Jiangnan University
2024
Wuxi Fourth People's Hospital
2024
Shenzhen Institutes of Advanced Technology
2024
Chinese Academy of Sciences
2024
Duke University
2022-2024
Wuhan Children's Hospital
2023
Northeast Agricultural University
2023
Northwestern Polytechnical University
2022
Sichuan University
2022
Abstract Horizontal gene transfer (HGT) and duplication are often considered as separate mechanisms driving the evolution of new functions. However, mobile genetic elements (MGEs) implicated in HGT can copy themselves, so positive selection on MGEs could drive duplications. Here, we use a combination modeling experimental to examine this hypothesis long-read genome sequences tens thousands bacterial isolates its generality nature. Modeling experiments show that antibiotic duplicated...
Abstract GMrepo (data repository for Gut Microbiota) is a database of curated and consistently annotated human gut metagenomes. Its main purpose to facilitate the reusability accessibility rapidly growing metagenomic data. This achieved by annotating microbial contents collected samples using state-of-art toolsets manual curation meta-data corresponding hosts. organizes according their associated phenotypes includes all possible related such as age, sex, country, body-mass-index (BMI) recent...
Abstract Buffalo is an important livestock species. Here, we present a comprehensive metagenomic survey of the microbial communities along buffalo digestive tract. We analysed 695 samples covering eight different sites in three compartments (four-chambered stomach, intestine, and rectum). mapped ~85% raw sequence reads to 4,960 strain-level metagenome-assembled genomes (MAGs) 3,255 species-level MAGs, 90% which appear correspond new In addition, annotated over 5.8 million nonredundant...
Goat is an important livestock worldwide, which plays indispensable role in human life by providing meat, milk, fiber, and pelts. Despite recent significant advances microbiome studies, a comprehensive survey on the goat microbiomes covering gastrointestinal tract (GIT) sites, developmental stages, feeding styles, geographical factors still unavailable. Here, we surveyed its multi-kingdom microbial communities using 497 samples from ten sites along GIT.We reconstructed catalog (GMMC)...
Liquid biopsy allows noninvasive and real-time analysis of tumor-derived circulating targets in body fluids, holding great value for cancer diagnosis, prognosis, personalized therapy, as well the understanding mechanisms underlying tumorigenesis progression. However, low concentration heterogeneity complexity fluids bring daunting technical challenges to liquid biopsy. Aptamers with many unique properties are considered promising recognition ligands Their facile modification affinity...
Abstract Microbiome-based diagnosis of cancer is an increasingly important supplement for the genomics approach in diagnosis, yet current models microbiome-based face difficulties generality: not only could be adapted from one to another, but built based on microbes tissues blood. Therefore, a model suitable broad spectrum types urgently needed. Here we have introduced DeepMicroCancer, using artificial intelligence techniques types. Built random forest it has enabled superior performances...
In recent decades, increasing evidence has strongly suggested that gut microbiota play an important role in many intestinal diseases including inflammatory bowel disease (IBD) and colorectal cancer (CRC). The composition of is thought to be largely shaped by interspecies competition for available resources also cooperative interactions. However, what extent the changes could attributed external factors such as diet choice internal mutual relationships among microbiota, respectively, are yet...
Abstract Background Sclerotium rolfsii is a potent producer of many secondary metabolites, one which like scleroglucan an exopolysaccharide (EPS) appreciated as multipurpose compound applicable in industrial fields. Results Aspartate transaminase ( AAT1 ) catalyzes the interconversion aspartate and α-ketoglutarate to glutamate oxaloacetate. We selected oxalate metabolic pathway target CRISPR/Cas9. Disruption leads accumulation oxalate, rather than its conversion (AKG). Therefore, AAT1-mutant...
Patients with tibial fractures are usually advised to follow a partial weight-bearing gait rehabilitation program after surgery promote bone healing and lower limb functional recovery. Currently, the biofeedback devices used for training in fracture patients use ground reaction force (GRF) as indicator of load. However, an increasing body research has shown that monitoring GRF alone cannot objectively reflect load on bones during human movement. In this study, novel system was developed...
The gut microbiota offers an extensive resource of enzymes, but many remain uncharacterized. To distinguish the activities similar annotated proteins and mine potentially applicable ones in microbiome, we applied effective Activity-Based Metaproteomics (ABMP) strategy using a specific activity-based probe (ABP) to screen entire microbiome for directly discovering active enzymes their potential applications, not exploring host-microbiome interactions. By cyclophellitol aziridine...
Wang, T.; Yu, W.; Zou, X.; Zhang, D.; Li, B.; J., and H., 2018. Zooplankton community responses the relation to environmental factors from established offshore wind farms within Rudong coastal area of China.The goal this study was examine zooplankton establishment an OWF, causes any observed effects, their in area. This article describes results investigation into main affecting that based on data obtained three cruises May, August, November 2015 Longyuan OWF Rudong, China. analyzed...
CNV is a vital pathogenic factor of congenital heart disease (CHD). However, few CNVs have been reported for total anomalous pulmonary venous connection (TAPVC), which rare form CHD. Using case-control study, we identified 15q11.2 deletion associated with TAPVC. We then used TAPVC trio as model to reveal possible molecular basis microdeletion.
Viruses and plasmids can introduce novel DNA into bacterial cells, thereby creating an opportunity for genome expansion; conversely, CRISPR, the prokaryotic adaptive immune system, which targets eliminates foreign DNAs, may impair expansions. Recent studies presented conflicting results over impact of CRISPR on expansion. In this study, we constructed a comprehensive dataset genomes identified their associations with viruses plasmids. We found that associated and/or were significantly larger...
A novel endophytic actinomycete, designated strain NEAU-365T, was isolated from the root of Quercus variabilis collected Nanjing, Jiangsu, PR China. Comparative 16S rRNA gene sequencing showed that NEAU-365T belonged to genus Mumia but clearly differs currently recognized species zhuanghuii Z350T (99.31 %), xiangluensis NEAU-KD1T (98.82 %) and flava MUSC 201T (97.78 %). Phylogenetic tree analysis revealed clustered with type strains Mumia. The genome size 4.1 Mbp a DNA G+C content 71.2 mol%....
Zn(2+) in the tumor-suppressor protein p53 DNA-binding domain (DBD) is essential for its structural stability and specificity. Mg(2+) has also been recently reported to bind p53DBD influence activity. In this contribution, binding geometry of mechanism how affects activity were investigated using density functional theory (DFT) calculations molecular dynamics (MD) simulations. Various possible coordination geometries histidines (His), cysteines (Cys), water molecules studied at...
<title>Abstract</title> The gut microbiota offers an extensive resource of enzymes, but many remain uncharacterized. To distinguish activities similar annotated proteins and mine the potentially applicable ones in microbiome, we developed effective Activity-Based Metaproteomics (ABMP) strategy using a specific activity-based probe (ABP) to screen entire microbiome for directly discovering active enzymes. Using cyclophellitol aziridine α-galactosidases (AGAL), successfully identified...
Colorectal carcinoma (CRC) is a highly prevalent and life-threatening disease with multi-stage progression, characterized by diverse molecular expression patterns at distinct stages, making treatment particularly challenging. Early detection diagnosis of CRC are vital can greatly benefit from the discovery effective biomarkers. Researchers have identified novel gene signatures that play pivotal roles in specific types or stages. Leucine Zipper Tumor Suppressor Family Member 3 (LZTS3),...
Microbiome research has generated an extensive amount of data, resulting in a wealth publicly accessible samples. Accurate annotation these samples is crucial for effectively utilizing microbiome data across scientific disciplines. However, notable challenge arises from the lack essential annotations, particularly regarding collection location and sample biome information, which significantly hinders environmental research. In this study, we introduce Meta-Sorter, novel approach neural...
Lung adenocarcinoma (LUAD) is a typical disease regarded as having multi-stage progression. However, many existing methods often ignore the critical differences among these stages, thereby limiting their effectiveness for discovering key biological molecules and functions signals at each stage. In this study, we propose method to discover evolution between by investigating of LUAD. The based on random walk algorithm Monte Carlo generate clusters modules, which were used subgraphs...