A5102716455- Gut microbiota and health
- Genomics and Phylogenetic Studies
- Microbial Community Ecology and Physiology
- Probiotics and Fermented Foods
- Influenza Virus Research Studies
- Clostridium difficile and Clostridium perfringens research
- Bacteriophages and microbial interactions
- SARS-CoV-2 and COVID-19 Research
- Animal Disease Management and Epidemiology
- Bacterial Identification and Susceptibility Testing
- Epigenetics and DNA Methylation
- COVID-19 epidemiological studies
- Plant Pathogens and Fungal Diseases
- vaccines and immunoinformatics approaches
- Identification and Quantification in Food
- Viral Infections and Vectors
- Respiratory viral infections research
- Environmental DNA in Biodiversity Studies
- Scientific Computing and Data Management
- Microbial Metabolic Engineering and Bioproduction
- RNA and protein synthesis mechanisms
- Antibiotic Resistance in Bacteria
- Research Data Management Practices
- CRISPR and Genetic Engineering
- Tuberculosis Research and Epidemiology
Microbiology Institute of Shaanxi
2016-2024
Institute of Microbiology
2014-2024
Chinese Academy of Sciences
2014-2024
Czech Academy of Sciences, Institute of Microbiology
2004-2024
NOAA National Data Buoy Center
2024
State Key Laboratory of Microbial Resources
2023
Center for Excellence in Brain Science and Intelligence Technology
2022
Northeastern University
2021
Beijing Jiaotong University
2019
Computer Network Information Center
2013-2016
Abstract Background In gut microbiome studies, the cultured microbial resource plays essential roles, such as helping to unravel functions and host-microbe interactions. Although several major studies have been performed elucidate human microbiota, up 70% of Unified Human Gastrointestinal Genome species not date. Large-scale isolation identification well availability public are imperative for further characterizing functions. Results this study, we constructed a Gut Microbial Biobank (hGMB;...
Microbes hold the key to life. They secrets our past (as descendants of earliest forms life) and prospects for future we mine their genes solutions some planet's most pressing problems, from global warming antibiotic resistance). However, piecemeal approach that has defined efforts study microbial genetic diversity over 20 years in 30,000 genome projects risks squandering promise. These have covered less than 20% cultured archaeal bacterial species, which represent just 15% overall known...
MycoBank, a registration system for fungi established in 2004 to capture all taxonomic novelties, acts as coordination hub between repositories such Index Fungorum and Fungal Names. Since January 2013, of fungal names is mandatory requirement valid publication under the International Code Nomenclature algae, plants (ICN). This review explains database innovations that have been implemented over past few years, discusses new features advanced queries, typification events (MBT numbers lecto,...
Abstract The human gastrointestinal (GI) tract harbors diverse microbes, and the family Lachnospiraceae is one of most abundant widely occurring bacterial groups in GI tract. Beneficial adverse effects on host health were reported, but diversities at species/strain levels as well their metabolites have been, so far, not documented. In present study, we report collection 77 h uman‐originated L a ch nospiraceae sp ecies (please refer hLchsp, https://hgmb.nmdc.cn/subject/lachnospiraceae ) vitro...
Pan-genomics is one of the most powerful means to study genomic variation and obtain a sketch genes within defined clade species. Though there are lot computational tools achieve this, an integrated framework evaluate their performance offer best choice users has never been achieved. To ease process large-scale prokaryotic genome analysis, we introduce Integrated Prokaryotes Genome pan-genome Analysis (IPGA), one-stop web service analyze, compare, visualize as well individual genomes, that...
Alcohol abuse and alcoholic liver diseases (ALD) have been worldwide spread. Chronic alcoholism-induced overgrowth of intestinal bacteria fungi together with the enteric dysbiosis are important pathogenic mechanisms in ALD. We demonstrated that water-insoluble polysaccharides (WIP) from Wolfporia cocos effectively ameliorated hepatic inflammatory injury fat accumulation through modulating gut microbiota mice steatosis (AHS). Oral administration WIP significantly enhanced ratio Firmictues to...
Abstract Taxonomic and functional research of microorganisms has increasingly relied upon genome-based data methods. As the depository Global Catalogue Microorganisms (GCM) 10K prokaryotic type strain sequencing project, Type Strain (gcType) published 1049 genomes sequenced by GCM project which are preserved in global culture collections with a valid status. Additionally, information provided through gcType includes >12 000 publicly available genome sequences from GenBank incorporated...
Abstract Mice are widely used as experimental models for gut microbiome (GM) studies, yet the majority of mouse GM members remain uncharacterized. Here, we report construction a microbial biobank (mGMB) that contains 126 species, represented by 244 strains have been deposited in China General Microorganism Culture Collection. We sequence and phenotypically characterize 77 potential new species propose their nomenclatures. The mGMB includes 22 17 significantly enriched ob/ob wild-type...
Abstract Multiple SARS-CoV-2 Omicron sub-variants, such as BA.2, BA.2.12.1, BA.4, and BA.5, emerge one after another. BA.5 has become the dominant strain worldwide. Additionally, BA.2.75 is significantly increasing in some countries. Exploring their receptor binding interspecies transmission risk urgently needed. Herein, we examine capacities of human other 28 animal ACE2 orthologs covering nine orders towards S proteins these sub-variants. The affinities between hACE2 sub-variants remain...
The World Federation of Culture Collections and the Data Center for Microorganisms (wdcm) initiated an international community-led project to sequence annotate newly described prokaryotic taxa. This sequencing aims cooperate with culture collections International Journal Systematic Evolutionary Microbiology contribute expansion whole genome databases type strains. It will provide global microbial taxonomists free standard annotation services. Taxonomists are encouraged contact wdcm...
Meta-omics approaches have been increasingly used to study the structure and function of microbial communities. A variety large-scale collaborative projects are being conducted encompass samples from diverse environments habitats. This change has resulted in enormous demands for long-term data maintenance capacity analysis. The Global Catalogue Metagenomics (gcMeta) is a part 'Chinese Academy Sciences Initiative Microbiome (CAS-CMI)', which focuses on studying human environmental microbiome,...
Abstract Fungal taxonomy is a complex and rapidly changing subject, which makes proper naming of fungi challenging for taxonomists. A registration platform with standardized information-integrated database powerful tool efficient research on fungal taxonomy. Names (FN, https://nmdc.cn/fungalnames/; launched in 2011) one the three official nomenclatural repositories authorized by International Nomenclature Committee Fungi (NCF). Currently, FN includes >567 000 taxon names from...
The World Data Centre for Microorganisms (WDCM) was established 50 years ago as the data center of Federation Culture Collections (WFCC)-Microbial Resource Center (MIRCEN). WDCM aims to provide integrated information services using big technology microbial resource centers and microbiologists all over world. Here, we an overview including its services. Information Worldwide (CCINFO) provides metadata on 708 culture collections from 72 countries regions. Global Catalogue Microorganism (GCM)...
Throughout the long history of industrial and academic research, many microbes have been isolated, characterized preserved (whenever possible) in culture collections. With steady accumulation observational data biodiversity as well microbial sequencing data, bio-resource centers to function information repositories serve academia, industry, regulators on behalf for general public. Hence, World Data Centre Microorganisms (WDCM) started take its responsibility constructing an effective...
Genomic information is essential for taxonomic, phylogenetic, and functional studies to comprehensively decipher the characteristics of microorganisms, explore microbiomes through metagenomics, answer fundamental questions nature human life. However, large gaps remain in available genomic sequencing published bacterial archaeal species, are even larger fungal type strains. The Global Catalogue Microorganisms (GCM) leads an internationally coordinated effort sequence strains close maps...
Abstract Human influenza infections display a strongly seasonal pattern. However, whether H7N9 and H5N1 correlate with climate factors has not been examined. Here, we analyzed 350 cases of infection 47 infection. The spatial characteristics these revealed that mainly occurred in the South, Middle Northwest China, while occurrence was concentrated coastal areas East South China. Aside from spatial-temporal characteristics, most adaptive meteorological conditions for human by two viral...
The next-generation sequencing technology has promoted the study on human TCR repertoire, which is essential for adaptive immunity. To decipher complexity of we developed an integrated pipeline, TCRklass, using K-string-based algorithm that significantly improved accuracy and performance over existing tools. We tested TCRklass manually curated short read datasets in comparison with silico datasets; it showed higher precision recall rates CDR3 identification. applied large two three mouse...
The recent outbreak of novel coronavirus-infected pneumonia (NCIP) in China (1) has attracted much attention domestically and internationally.As the occurred, carried out emergency responses quickly, notified World Health Organization (WHO) a timely manner, shared viral gene sequence with international communities immediately after pathogenic identification.The release information on coronavirus (2019-nCoV), joint research relevant genome mutations, pathogenicity, transmission mechanisms,...
The genomic variations of SARS-CoV-2 continue to emerge and spread worldwide. Some mutant strains show increased transmissibility virulence, which may cause reduced protection provided by vaccines. Thus, it is necessary continuously monitor analyze the SARS-COV-2 genomes. We established an evaluation prewarning system, system (VarEPS), including known virtual mutations genomes achieve rapid risks posed strains. From perspective genomics structural biology, database comprehensively analyzes...
ST7 Staphylococcus aureus is highly prevalent in humans, pigs, as well food China; however, staphylococcal poisoning (SFP) caused by this ST type has rarely been reported. On May 13, 2017, an SFP outbreak S. strains occurred two campuses of a kindergarten Hainan Province, China. We investigated the genomic characteristics and phylogenetic analysis combined with 91 food-borne from 12 provinces China performing whole-genome sequencing (WGS). There was clear clustering seven isolates. Six...