Nao Yamakawa

ORCID: 0000-0003-3824-8661
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About
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Research Areas
  • Glycosylation and Glycoproteins Research
  • Carbohydrate Chemistry and Synthesis
  • Proteoglycans and glycosaminoglycans research
  • Biosensors and Analytical Detection
  • Bacteriophages and microbial interactions
  • Escherichia coli research studies
  • Monoclonal and Polyclonal Antibodies Research
  • Analytical Chemistry and Chromatography
  • Genomics and Phylogenetic Studies
  • Protein Structure and Dynamics
  • Neuroblastoma Research and Treatments
  • Enzyme Structure and Function
  • Microbial Community Ecology and Physiology
  • Advanced biosensing and bioanalysis techniques
  • Diet, Metabolism, and Disease
  • Mass Spectrometry Techniques and Applications
  • Probiotics and Fermented Foods
  • Cancer, Hypoxia, and Metabolism
  • Caveolin-1 and cellular processes
  • Electrochemical sensors and biosensors
  • Microfluidic and Bio-sensing Technologies
  • Advanced Proteomics Techniques and Applications
  • ATP Synthase and ATPases Research
  • Toxoplasma gondii Research Studies
  • Invertebrate Immune Response Mechanisms

Unité de Glycobiologie Structurale et Fonctionnelle
2012-2025

Université de Lille
2017-2025

Inserm
2020-2025

Centre Hospitalier Universitaire de Lille
2020-2025

Centre National de la Recherche Scientifique
2012-2025

Institut Pasteur de Lille
2020-2025

Nagoya University
2007-2025

Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement
2015-2020

Université Lille Nord de France
2012

Abstract The emergence of zebrafish Danio rerio as a versatile model organism provides the unique opportunity to monitor functions glycosylation throughout vertebrate embryogenesis, providing insights into human diseases caused by defects. Using combination chemical modifications, enzymatic digestion and mass spectrometry analyses, we establish here precise glycomic profiles eight individual organs demonstrate that protein glycosphingolipid expression patterns exhibits exquisite specificity....

10.1038/s41467-018-06950-3 article EN cc-by Nature Communications 2018-11-01

A variety of physical and chemical parameters are importance for adhesion bacteria to surfaces. In the colonization mammalian organisms example, bacterial fimbriae their adhesins not only seek particular glycan sequences exposed on diverse epithelial linings, they also enable overcome electrostatic repulsion exerted by selected this work, we present a new technique based simplified model systems studying strength different Escherichia coli strains. For purpose, gold-based surface plasmon...

10.1021/am405541z article EN ACS Applied Materials & Interfaces 2014-01-16

n-Heptyl α-d-mannose (HM) is a nanomolar antagonist of FimH, virulence factor E. coli. Herein we report on the construction multivalent HM-based glycopolymers as potent antiadhesives type 1 piliated We investigate glycopolymer/FimH and glycopolymer/bacteria interactions show that efficiently inhibit bacterial adhesion disrupt established cell-bacteria in vitro at very low concentration (0.1 μM mannose unit basis). On valency-corrected basis, are, respectively, 10(2) 10(6) times more than HM...

10.1021/acs.biomac.5b00413 article EN Biomacromolecules 2015-05-11

Significance Using an interactomic approach, we have identified the nuclear receptor REV-ERBα as a O-GlcNAc transferase (OGT) protein partner. protects cytoplasmic OGT from proteasomal degradation and facilitates cytosolic O-GlcNAcylation while REV-ERα ligands decreased activity. thus exerts pleiotropic activities through OGT, coordinating signal transduction, epigenomic programming, transcriptional response in liver.

10.1073/pnas.1805397115 article EN cc-by-nc-nd Proceedings of the National Academy of Sciences 2018-11-05

Sialylation of glycoproteins and glycolipids is catalyzed by sialyltransferases in the Golgi mammalian cells, whereby sialic acid residues are added at nonreducing ends oligosaccharides. Because sialylated glycans play critical roles a number human physio-pathological processes, past two decades have witnessed development modified derivatives for better understanding biology new therapeutic targets. However, nothing known about how individual tolerate behave towards these unnatural...

10.1002/cbic.201700024 article EN cc-by-nc-nd ChemBioChem 2017-04-10

Abstract Siglec-7 is a human CD33-like siglec, and localised predominantly on natural killer (NK) cells monocytes. considered to function as an immunoreceptor in sialic acid-dependent manner. However, the underlying mechanisms linking acid-binding remain unknown. Here, gain new insights into ligand-binding properties of Siglec-7, we carried out silico analysis site-directed mutagenesis, found region (site 2 containing R67) addition well-known primary 1 R124). This was supported by...

10.1038/s41598-020-64887-4 article EN cc-by Scientific Reports 2020-05-26

Glycoprotein 2 (GP2) and uromodulin (UMOD) filaments protect against gastrointestinal urinary tract infections by acting as decoys for bacterial fimbrial lectin FimH. By combining AlphaFold2 predictions with X-ray crystallography cryo-EM, we show that these proteins contain a bipartite decoy module whose new fold presents the high-mannose glycan recognized The structure rationalizes UMOD mutations associated kidney diseases visualizes key epitope implicated in cast nephropathy.

10.1038/s41594-022-00729-3 article EN cc-by Nature Structural & Molecular Biology 2022-03-01

Antagonists of the FimH adhesin, a protein almost universally present at extremity type-1 fimbriae expressed by Escherichia coli, have been abundantly in spotlight as alternative treatments urinary tract infections. The antagonists function bacterial antiadhesives through highly specific α-d-mannose binding charged and polar pocket tip lectin domain stacking alkyl or aromatic moieties substituted on mannose with two tyrosine residues (Tyr48 Tyr137) entrance mannose-binding pocket. Using...

10.1021/ml400269v article EN ACS Medicinal Chemistry Letters 2013-09-13

Bacillus species are a major economic and food safety concern of the industry because their spoilage-causing capability persistence. Their persistence is mainly due to ability form highly resistant spores adhering surfaces industrial equipment. Spores subtilis group surrounded by crust, superficial layer which plays key role in adhesion properties. However, knowledge composition structure this remains incomplete. Here, for first time, we identified nonulosonic acid (Leg) at bacterial ( B. )....

10.1128/mbio.01153-20 article EN cc-by mBio 2020-08-17

The expression and biological functions of oncofetal markers GD2 GD3 were extensively studied in neuroectoderm-derived cancers order to characterize their potential as therapeutic targets. Using immunological approaches, we previously identified GD3, GD2, OAcGD2 breast cancer (BC) cell lines. However, antibodies specific for O-acetylated gangliosides are not exempt limitations, they only provide information on the a limited set ganglioside species. Consequently, aim present study was use...

10.3390/ijms21010370 article EN International Journal of Molecular Sciences 2020-01-06

Sialic acids are important glycan components not only in the conformation of structure but also functions many biological activities. Detection methods for sialic acid have been developed, and fluorescent labeling with 1,2-diamino-4,5-methylenedioxybenzene (DMB) is best method its analysis. However, identifying quantifying using mass spectrometry (MS) remains difficult because diversity acids, including O-acetylation. In this study, we initially focused on enhancing liquid chromatography...

10.1016/j.bbadva.2025.100152 article EN cc-by-nc-nd BBA Advances 2025-01-01

We characterized the N-glycosylation profiles of anhydrobiotic tardigrades, R. varieornatus and H. exemplaris, identifying high-mannose, paucimannose, complex-type oligosaccharides, while hybrid-type glycans were undetectable. Notably, paucimannose-type oligosaccharides accounted for 39% N-glycans in 17% with a substantial proportion them exhibiting fucosylation innermost GlcNAc via an α1,6-linkage. This core pattern, common to all animals, was observed alongside distinctive glycosylation...

10.1016/j.mcpro.2025.100979 article EN cc-by Molecular & Cellular Proteomics 2025-04-01

Antagonists of the Escherichia coli type-1 fimbrial adhesin FimH are recognized as attractive alternatives for antibiotic therapies and prophylaxes against acute recurrent bacterial infections. In this study α-d-mannopyranosides O- or C-linked with an alkyl, alkene, alkyne, thioalkyl, amide, sulfonamide were investigated to fit a hydrophobic substituent up two aryl groups within tyrosine gate emerging from mannose-binding pocket FimH. The results summarized into set structure-activity...

10.3390/molecules22071101 article EN cc-by Molecules 2017-07-03

Post-translational modifications (PTMs) constitute a huge group of chemical increasing the complexity proteomes living beings. PTMs have been discussed as potential anti-malarial drug targets due to their involvement in many cell processes. O-GlcNAcylation is widespread PTM found different organisms including Plasmodium falciparum. The aim this study was identify O-GlcNAcylated proteins P. falciparum, learn more about modification process and understand its eventual functions...

10.1186/s12936-017-2131-2 article EN cc-by Malaria Journal 2017-11-29

The flagella of various Gram-negative bacteria are decorated with diverse glycan structures, amongst them nonulosonic acids related to the sialic acid family. Although sugar biosynthesis pathways have been dissected in pathogens, enzymes transferring sugars onto flagellin still poorly characterized. deletion genes coding for motility associated factors (Mafs) found many pathogenic strains systematically gives rise nonflagellated lacking specific on flagellins, therefore, relating Maf...

10.1111/1462-2920.13975 article EN Environmental Microbiology 2017-10-27

Naturally occurring polysialic acid (polySia) structures have a large diversity, primarily arising from the diversity in sialic components as well intersialyl linkages. In 2004, we demonstrated presence of new type polySia, 8-O-sulfated N-acetylneuraminic (Neu5Ac) capped α2,9-linked polyNeu5Ac, on O-glycans major 40–80 kDa sialoglycoprotein, flagellasialin, sea urchin sperm. this study, that another α2,8-linked exclusively occurs 190 glycoprotein (190 kDa-gp), whereas polyNeu5Ac is present...

10.1093/glycob/cwr081 article EN Glycobiology 2011-07-01

A novel mechanism is revealed by which clinical isolates of adherent-invasive Escherichia coli (AIEC) penetrate into the epithelial cell layer, replicate, and establish biofilms in Crohn's disease. AIEC uses FimH fimbrial adhesin to bind oligomannose glycans on surface host cells. Oligomannose exposed early apoptotic cells are preferred binding targets AIEC, so serve as potential entry points for bacteria layer. Thereafter, propagate laterally intercellular spaces. We demonstrate...

10.3389/fmicb.2018.00742 article EN cc-by Frontiers in Microbiology 2018-04-18

The emergence of zebrafish as a model organism for human diseases was accompanied by the development cellular systems that extended possibilities in vitro manipulation and vivo studies after cell implantation. exploitation is, however, still hampered lack genomic biochemical data. Here, we lay path toward efficient use ZFL, liver-derived system, platform studying glycosylation. To achieve this, established glycomic profile ZFL combination mass spectrometry NMR. We demonstrated glycoproteins...

10.1021/pr200948j article EN Journal of Proteome Research 2012-02-21
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