A5101898290- Genomics and Phylogenetic Studies
- Yersinia bacterium, plague, ectoparasites research
- Aquaculture disease management and microbiota
- Antifungal resistance and susceptibility
- Vector-borne infectious diseases
- Ferroptosis and cancer prognosis
- Vibrio bacteria research studies
- Identification and Quantification in Food
- Particle physics theoretical and experimental studies
- Quantum Chromodynamics and Particle Interactions
- Bee Products Chemical Analysis
- Chromosomal and Genetic Variations
- High-Energy Particle Collisions Research
- Plant Pathogenic Bacteria Studies
- Fish biology, ecology, and behavior
- Salmonella and Campylobacter epidemiology
- Bacillus and Francisella bacterial research
- Bacterial biofilms and quorum sensing
- Microbial infections and disease research
- Immune cells in cancer
- Legionella and Acanthamoeba research
- Escherichia coli research studies
- Proteoglycans and glycosaminoglycans research
- Radiomics and Machine Learning in Medical Imaging
- Animal Disease Management and Epidemiology
Guiyang Medical University
2025
Affiliated Hospital of Guizhou Medical University
2025
Ruijin Hospital
2024-2025
Shanghai Jiao Tong University
2024-2025
Zigong First People's Hospital
2024
University of Chinese Academy of Sciences
2021-2023
Xi'an Jiaotong University
2019-2022
University of Electronic Science and Technology of China
2022
Sichuan Academy of Medical Sciences & Sichuan Provincial People's Hospital
2022
China XD Group (China)
2021
Abstract Lactobacilli are a diverse group of species that occupy nutrient-rich niches associated with humans, animals, plants and food. They used widely in biotechnology food preservation, being explored as therapeutics. Exploiting lactobacilli has been complicated by metabolic diversity, unclear identity uncertain relationships between them other commercially important lactic acid bacteria. The capacity for biotransformations catalysed is an untapped resource. Here we report the genome...
An outbreak caused by Shiga-toxin–producing Escherichia coli O104:H4 occurred in Germany May and June of 2011, with more than 3000 persons infected. Here, we report a cluster cases associated single family describe an open-source genomic analysis isolate from one member the family. This involved use rapid, bench-top DNA sequencing technology, data release, prompt crowd-sourced analyses. In less week, these studies revealed that strain belonged to enteroaggregative E. lineage had acquired...
The genetic diversity of Yersinia pestis , the etiologic agent plague, is extremely limited because its recent origin coupled with a slow clock rate. Here we identified 2,326 SNPs from 133 genomes Y. strains that were isolated in China and elsewhere. These define genealogy since most common ancestor. All but 28 these represented mutations happened only once within genealogy, they distributed essentially at random among individual genes. Only seven genes contained significant excess...
As Charles Darwin anticipated, living fossils provide excellent opportunities to study evolutionary questions related extinction, competition, and adaptation. Ginkgo (Ginkgo biloba L.) is one of the oldest plants a fascinating example how people have saved species from extinction assisted its resurgence. By resequencing 545 genomes ginkgo trees sampled 51 populations across world, we identify three refugia in China detect multiple cycles population expansion reduction along with glacial...
Avian influenza virus A of the novel H7N9 reassortant subtype was recently found to cause severe human respiratory infections in China. Live poultry markets were suspected locations infection sources, based on cases' exposure histories and sequence similarities between viral isolates. To explore role live origin virus, we systematically examined environmental specimens from local farms Hangzhou, using real-time reverse transcription-PCR (RT-PCR) as well high-throughput next-generation...
We investigated global patterns of variation in 157 whole-genome sequences Vibrio parahaemolyticus, a free-living and seafood associated marine bacterium. Pandemic clones, responsible for recent outbreaks gastroenteritis humans, have spread globally. However, there are oceanic gene pools, one located the oceans surrounding Asia another Mexican Gulf. Frequent recombination means that most isolates acquired genetic profile their current location. structure Asian pool by calculating effective...
Abstract Background With more than 30,000 species, fish—including bony, jawless, and cartilaginous fish—are the largest vertebrate group, include some of earliest vertebrates. Despite their critical roles in many ecosystems human society, fish genomics lags behind work on birds mammals. This severely limits our understanding evolution hinders progress conservation sustainable utilization fish. Results Here, we announce Fish10K project, a portion Earth BioGenome Project aiming to sequence...
Macrophages have been reported to exert a crucial role in hepatocellular carcinoma (HCC). This study aimed explore the macrophage-related genes and establish signature (MRS) model predict overall survival (OS) of patients with HCC based on these genes’ expression. We screened gene module by weighted coexpression network analysis (WGCNA), least absolute shrinkage selection operator (LASSO) Cox regression was utilized for further selection, selected were entered into stepwise develop MRS...
Bifidobacteria are well known for their human health-promoting effects and therefore widely applied in the food industry. Members of Bifidobacterium genus were first identified from gastrointestinal tract then found to be distributed across various ecological niches. Although genetic diversity has been determined based on several marker genes or a few genomes, global evolution scenario entire remain unresolved. The present study comparatively analyzed genomes 45 type strains. We built robust...
Abstract Background Siamese fighting fish Betta splendens are notorious for their aggressiveness and accordingly have been widely used to study aggression. However, the lack of a reference genome has, date, limited understanding genetic basis aggression in this species. Here, we present first assembly fish. Findings Frist, sequenced de novo assembled 465.24-Mb B. variety Giant, with weighted average (N50) scaffold size 949.03 Kb an N50 contig 19.01 Kb, covering 99.93% estimated size. To...
Abstract Yersinia pestis is transmitted from fleas to rodents when the bacterium develops an extensive biofilm in foregut of a flea, starving it into feeding frenzy, or, alternatively, during brief period directly after on bacteremic host. These two transmission modes are trade-off regulated by amount produced bacterium. Here investigating 446 global isolated Y. genomes, including 78 newly sequenced isolates sampled over 40 years plague focus China, we provide evidence for strong selection...
Accurate identification of the molecular subtypes breast cancer is essential for effective treatment selection and prognosis prediction. This study aimed to evaluate diagnostic performance a radiomics model, which integrates mammography dynamic contrast-enhanced magnetic resonance imaging (DCE-MRI) in predicting cancer. We retrospectively included 462 female patients with pathologically confirmed cancer, including 53 cases triple-negative, 94 HER2 overexpression, 95 luminal A, 215 B...
Introduction. Germline mutations have been described in multiple renal neoplasm entities the fifth edition of World Health Organization Classification Urinary and Male Genital Systems. However, our knowledge neoplasms with germline remains limited. Methods. To expand understanding, 15 tumors were retrieved from 284 that underwent next-generation sequencing, including well-known VHL, FH, SDHB, FLCN, TSC1, less common genes such as MUTYH, NF2, BARD1. Results. Interesting findings included...
Dasa-NLC could significantly inhibit the corneal neovascularization.
Background Variable number of tandem repeats (VNTRs) that are widely distributed in the genome Yersinia pestis proved to be useful markers for genotyping and source-tracing this notorious pathogen. In study, we probed into features VNTRs Y. developed a simple hierarchical system based on optimized VNTR loci. Methodology/Principal Findings Capillary electrophoresis was used study multi-locus analysis (MLVA) 956 strains. The general genetic diversities 88 loci were analyzed with BioNumerics,...
Abstract Multilocus sequence typing was applied to a collection of 327 clinical isolates Klebsiella pneumoniae from China, which proven be good representative the global diversity K. . Three lineages L1 L3 are presented in population with limited genetic flow across different lineages. However, extremely high levels recombination can observed within extent at alleles associated almost randomly. Lineages L2 and most likely represent highly specific subgroups less-virulent modified metabolic...
Source tracing of pathogens is critical for the control and prevention infectious diseases. Genome sequencing by high throughput technologies currently feasible popular, leading to burst deciphered bacterial genome sequences. Utilizing flooding genomic data source in outbreaks promising, challenging as well. Here, we employed Yersinia pestis genomes from a plague outbreak at Xinghai county China 2009 an example, develop simple two-step strategy rapid outbreak. The first step was define...
Streptococcus pneumoniae is a major pathogen causing bacterial infection in the middle ear of humans. We previously used S. strain ST556, low-passage 19F isolate from an otitis media patient, to perform whole-genome screen for infection-associated genes chinchilla model. This report presents complete genome sequence ST556. The will provide information complementary experimental data our genetic study this strain.
P38 mitogen-activated protein kinase (MAPK)12 (also known as γ) is critical in the development and progression of various types tumors. Despite extensive literature on subject, further studies are needed to elucidate its role cancer progression. Here, a comprehensive bioinformatics analysis generalized dataset was performed explore mechanism MAPK12 regulation tumorigenesis. Several tumor datasets online analytical tools, including HPA, SangerBox, UALCAN, GEPIA2, STRING, ImmuCellAI, MEXPRESS,...
Legionella (Fluoribacter) dumoffii is one of the agents causing Legionnaires' disease. Here, we used Illumina second-generation sequencing technology to decipher for first time whole-genome sequences two strains this species, TEX-KL and NY-23. The assembly results both consist chromosome plasmids.
We report here the genome sequence of Borrelia afzelii strain HLJ01, isolated from a patient with Lyme disease in China. It is first whole B. burgdorferi sensu lato isolate human