A5070338100- Gut microbiota and health
- Insect symbiosis and bacterial influences
- Biofuel production and bioconversion
- Enzyme Production and Characterization
- Oral health in cancer treatment
- T-cell and B-cell Immunology
- Genomics and Phylogenetic Studies
- Clostridium difficile and Clostridium perfringens research
- Colorectal Cancer Screening and Detection
- Pancreatic and Hepatic Oncology Research
- Colorectal Cancer Treatments and Studies
- Immune Cell Function and Interaction
- Invertebrate Immune Response Mechanisms
- Polar Research and Ecology
- Tardigrade Biology and Ecology
- CAR-T cell therapy research
- Orthopedic Infections and Treatments
- vaccines and immunoinformatics approaches
- Phytase and its Applications
- Food Security and Health in Diverse Populations
- Mycorrhizal Fungi and Plant Interactions
- Inflammatory Bowel Disease
- Monoclonal and Polyclonal Antibodies Research
- Legume Nitrogen Fixing Symbiosis
- Diabetes and associated disorders
Biomedical Primate Research Centre
2023-2025
Vrije Universiteit Amsterdam
2017-2023
Maastricht University
2022
Maastricht University Medical Centre
2021-2022
Vietnam Academy of Science and Technology
2017-2022
Folsomia candida is a model in soil biology, belonging to the family of Isotomidae, subclass Collembola. It reproduces parthenogenetically presence Wolbachia, and exhibits remarkable physiological adaptations stress. To better understand these features life soil, we studied its genome context parthenogenetic lifestyle.We applied Pacific Bioscience sequencing assembly generate reference for F. 221.7 Mbp, comprising only 162 scaffolds. The complete endosymbiont was also assembled turned out be...
The microbiome associated with an animal's gut and other organs is considered integral part of its ecological functions adaptive capacity. To better understand how microbial communities influence activities capacities the host, we need more information on that are encoded in a microbiome. Until now, about soil invertebrate microbiomes mostly based taxonomic characterization, achieved through culturing amplicon sequencing. Using shotgun sequencing various bioinformatics approaches explored...
Bacteria in rumen play pivotal roles the digestion of nutrients to support energy for host. In this study, metagenomic deep sequencing bacterial metagenome extracted from goats' generated 48.66 GB data with 3,411,867 contigs and 5,367,270 genes. The genes were mainly functionally annotated by Kyoto Encyclopedia Genes Genomes (KEGG) Carbohydrate-Active enZYmes (CAZy), HMMER database, taxonomically classified MEGAN. As a result, 65,554 encoding 30 enzymes/proteins related lignocellulose...
This clinical study explored the associations between intestinal microbiota, chemotherapy toxicity, and treatment response in postmenopausal oestrogen receptor positive breast cancer patients.Oestrogen patients were prospectively enroled a multicentre cohort treated with 4 cycles of (neo)adjuvant adriamycin, cyclophosphamide (AC) followed by docetaxel (D). Patients collected faecal sample completed questionnaire before treatment, during AC, D, after completing AC-D. Chemotherapy toxicity...
Abstract Killer cell immunoglobulin-like receptors (KIRs) are key modulators of natural killer activity, displaying either activating or inhibitory potential upon recognition major histocompatibility complex (MHC) class I molecules. The genomic organization KIR genes is complex, involving copy number variation and allelic polymorphism, which probably due to their coevolution with highly polymorphic MHC ligands. diversity reflected by more than 70 similar region configurations encountered in...
Previous preclinical and clinical research has investigated the role of intestinal microbiota in carcinogenesis. Growing evidence exists that can influence breast cancer However, needs to be further investigated. This study aimed identify differences between postmenopausal patients controls.This prospective cohort compared richness, diversity, composition histologically proven ER+/HER2- controls. Patients scheduled for (neo)adjuvant adriamycin, cyclophosphamide (AC), docetaxel (D), or...
In a previous study, analysis of Illumina sequenced metagenomic DNA data bacteria in Vietnamese goats' rumen showed high diversity putative lignocellulolytic genes. this taxonomy speculation microbial community and population the was conducted to elucidate role bacterial structure for effective degradation plant materials.The had been subjected into Basic Local Alignment Search Tool (BLASTX) algorithm National Center Biotechnology Information non-redundant sequence database. Here BLASTX hits...
Previous pre-clinical research has indicated that the intestinal microbiota can potentiate anti-tumour efficacy of capecitabine and treatment impacts composition diversity. Using a longitudinal design, this study explores associations between response in patients with metastatic colorectal cancer (mCRC) during treatment.Patients mCRC treated were prospectively enrolled multicentre cohort study. Patients collected faecal sample completed questionnaire before, during, after three cycles...
The scarcity of enzymes having an optimal activity in lignocellulose deconstruction is obstacle for industrial-scale conversion cellulosic biomass into biofuels. With the aim mining novel lignocellulolytic enzymes, a ~9 Gb metagenome bacteria Vietnamese native goats' rumen was sequenced by Illumina platform. From data, 821 ORFs encoding carbohydrate esterases (CEs) and polysaccharide lyases (PLs) serving pre-treatment, 816 11 glycoside hydrolase families (GHs) cellulases, 2252 22 GHs...
We aimed to investigate the microbial diversity, mine lignocellulose-degrading enzymes/proteins, and analyze domain structures of mined enzymes/proteins in humus samples collected from Cuc Phuong National Park, Vietnam. Using a high-throughput Illumina sequencer, 52 Gbs DNA were assembled 2,611,883 contigs, which 4,104,872 open reading frames (ORFs) identified. Among total microbiome analyzed, bacteria occupied 99.69%; five ubiquitous bacterial phyla included Proteobacteria, Bacteroidetes,...
The regions in the genome that encode components of immune system are often featured by polymorphism, copy number variation, and segmental duplications. There is a need to thoroughly characterize these complex gain insight into impact genomic diversity on health disease. Here we resolve organization complete major histocompatibility (MHC) class II rhesus macaques using long-read sequencing strategy (Oxford Nanopore Technologies) concert with adaptive sampling. In particular, expansion...
Abstract The human gut microbiota has been shown to be significantly perturbed by antibiotic use, while recovering the pre-treatment state several weeks after short exposure. effects of antibiotics on have however mainly documented in high-income settings with lower levels resistance as compared and middle income countries (LMIC). This study aimed examine long-term consequences repeated exposure commonly use fecal residents living a low setting high prevalence resistance. Fecal samples from...
Detrimental consequences of antibiotic treatment may include long-lasting disruption the gut microbiota. Previous studies found no negative effects antibiotics on metabolic health, although individualized responses were observed. Here, we aimed to investigate subject-specific response vancomycin use in tissue-specific insulin sensitivity by stratifying individuals based presence resistance genes (ARGs) or opportunistic pathogens (OPs) baseline fecal Quantitative Polymerase Chain Reaction...
Horizontal gene transfer (HGT) is defined as the acquisition by an organism of hereditary material from a phylogenetically unrelated organism. This process mostly observed among bacteria and archaea, considered less likely between microbes multicellular eukaryotes. However, recent studies provide compelling evidence evolutionary importance HGT in eukaryotes, driving functional innovation. Here, we study event Folsomia candida (Collembola, Hexapoda) carbohydrate-active enzyme homologous to...
Abstract The regions in the genome that encode components of immune system are often featured by polymorphism, copy number variation and segmental duplications. There is a need to thoroughly characterize these complex gain insight into impact genomic diversity on health disease. Here we resolve organization complete major histocompatibility (MHC) class II rhesus macaques using long-read sequencing strategy (Oxford Nanopore Technologies) concert with adaptive sampling. In particular,...
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Abstract Introduction A substantial number of Crohn’s disease (CD) patients experience side-effects and/or non-response to medical drugs. In part, this might be attributed the interaction intestinal microbiome with xenobiotics. The aim study was explore effect common CD drugs on patient’s in vitro . Methods fecal each 5 exposed 42 μg/ml budesonide, 55 6-mercaptopurine (6-MP), or 15 tofacitinib, DMSO-control defined culture medium an anaerobic chamber at 37°C for 24 hours. Subsequently, DNA...