Attenuated GABAergic signaling in intestinal epithelium contributes to pathogenesis of ulcerative colitis, Digestive Diseases and Sciences, vol.62, pp.2768-2779, 2017. ,
Differential behavior of E-cadherin and occludin in their colocalization with ZO-1 during the establishment of epithelial cell polarity, Journal of Cellular Physiology, vol.179, pp.115-125, 1999. ,
Imaging cells in three-dimensional collagen matrix, Current Protocols in Cell Biology, vol.10, pp.1-20, 2010. ,
Genetic and functional interaction of evolutionarily conserved regions of the Prp18 protein and the U5 snRNA, Molecular and Cellular Biology, vol.25, pp.2107-2116, 2005. ,
An ex-vivo human intestinal model to study Entamoeba histolytica pathogenesis, PLoS Neglected Tropical Diseases, vol.3, p.551, 2009. ,
URL : https://hal.archives-ouvertes.fr/inserm-00691361
Galectins. Structure and function of a large family of animal lectins, The Journal of Biological Chemistry, vol.269, pp.20807-20810, 1994. ,
Transport of lipophilic drug molecules in a new mucus-secreting cell culture model based on HT29-MTX cells, Pharmaceutical Research, vol.18, pp.1138-1145, 2001. ,
Ankyrins and cellular targeting of diverse membrane proteins to physiological sites, Current Opinion in Cell Biology, vol.13, pp.61-67, 2001. ,
Chemotaxis of Entamoeba histolytica towards the pro-inflammatory cytokine TNF is based on PI3K signalling, cytoskeleton reorganization and the Galactose/N-acetylgalactosamine lectin activity, Cellular Microbiology, vol.10, pp.1676-1686, 2008. ,
Plakins, a versatile family of cytolinkers: Roles in skin integrity and in human diseases, The Journal of Investigative Dermatology, vol.134, pp.885-894, 2014. ,
Villin associates with specific microfilamentous structures as seen by immunofluorescence microscopy on tissue sections and cells microinjected with villin, Experimental Cell Research, vol.135, pp.213-219, 1981. ,
Host defense mechanisms triggered by microbial lipoproteins through toll-like receptors, Science, vol.285, pp.732-736, 1999. ,
Macrophage migration inhibitory factor: A regulator of innate immunity, Nature Reviews. Immunology, vol.3, pp.791-800, 2003. ,
Identification of long noncoding RNAs for the detection of early stage lung squamous cell carcinoma by microarray analysis, Oncotarget, vol.8, pp.13329-13337, 2017. ,
Proteomics, transcriptomics and lipidomics of exosomes and ectosomes, Proteomics, vol.13, pp.1554-1571, 2013. ,
The protein interaction network of extracellular vesicles derived from human colorectal cancer cells, Journal of Proteome Research, vol.11, pp.1144-1151, 2012. ,
Actin dynamics associated with focal adhesions, International journal of cell biology, p.941292, 2012. ,
Mechanism of RNA polymerase I transcription, Advances in Protein Chemistry, vol.67, pp.123-155, 2004. ,
Entamoeba histolytica-induced mucin exocytosis is mediated by VAMP8 and is critical in mucosal innate host defense, MBio, vol.8, issue.5, pp.1323-1340, 2017. ,
MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification, Nature Biotechnology, vol.26, pp.1367-1372, 2008. ,
Poly(adenosine diphosphate-ribose) polymerase as therapeutic target: lessons learned from its inhibitors, Oncotarget, vol.8, pp.50221-50239, 2017. ,
Short term Caco-2/TC7 cell culture: comparison between conventional 21-d and a commercially available 3-d system, Biological & Pharmaceutical Bulletin, vol.27, 1986. ,
The identification of markers of macrophage differentiation in PMA-stimulated THP-1 cells and monocyte-derived macrophages, PLoS One, vol.5, p.8668, 2010. ,
Icy: an open bioimage informatics platform for extended reproducible research, Nature Methods, vol.9, pp.690-696, 2012. ,
Plasticity of the brush border -the yin and yang of intestinal homeostasis, Nature Reviews. Gastroenterology & Hepatology, vol.13, pp.161-174, 2016. ,
URL : https://hal.archives-ouvertes.fr/hal-01305659
A new medium for the axenic cultivation of Entamoeba histolytica and other Entamoeba, Transactions of the Royal Society of Tropical Medicine and Hygiene, vol.72, pp.431-432, 1978. ,
Mapping RNA-seq Reads with STAR, Current Protocols in Bioinformatics, vol.51, pp.11-19, 2015. ,
Primary cell-derived intestinal models: Recapitulating physiology, Trends in Biotechnology, vol.37, pp.744-760, 2019. ,
Crosstalk between p53 and TGF-beta Signalling, Journal of Signal Transduction, p.294097, 2012. ,
Cell cycle arrest through indirect transcriptional repression by p53: I have a DREAM, Cell Death and Differentiation, vol.25, pp.114-132, 2018. ,
Virulence and virulence factors in Entamoeba histolytica, the agent of human amoebiasis. Microbes and Infection, vol.14, pp.1428-1441, 2012. ,
Endoplasmic reticulum stress and unfolded protein response in infection by intracellular parasites, Future Sci OA, vol.3, p.198, 2017. ,
Revealing the cytoskeletal organization of invasive cancer cells in 3D, Journal of Visualized Experiments, vol.80, p.50763, 2013. ,
Calibration plot for proteomics: A graphical tool to visually check the assumptions underlying FDR control in quantitative experiments, Proteomics, vol.16, pp.29-32, 2016. ,
URL : https://hal.archives-ouvertes.fr/hal-02191440
Non-coding RNAs and resistance to anticancer drugs in gastrointestinal tumors, Limited role of nuclear receptor Nur77 in Escherichia coli-induced peritonitis. Infection and Immunity, vol.8, pp.253-264, 2014. ,
Adherens junctions and desmosomes are damaged by Entamoeba histolytica: Participation of EhCPADH complex and EhCP112 protease, Cellular Microbiology, vol.19, 2017. ,
Caco-2 versus Caco-2/HT29-MTX co-cultured cell lines: permeabilities via diffusion, inside-and outside-directed carrier-mediated transport, Journal of Pharmaceutical Sciences, vol.89, pp.63-75, 2000. ,
A 3-D artificial colon tissue mimic for the evaluation of nanoparticle-based drug delivery system, Molecular Pharmaceutics, vol.11, pp.2051-2061, 2014. ,
Caspase 3-dependent killing of host cells by the parasite Entamoeba histolytica, Cellular Microbiology, vol.2, pp.617-625, 2000. ,
A complex human gut microbiome cultured in an anaerobic intestine-on-a-chip, Nature Biomedical Engineering, vol.3, pp.520-531, 2019. ,
RELP, a novel human REG-like protein with up-regulated expression in inflammatory and metaplastic gastrointestinal mucosa, The American Journal of Pathology, vol.163, pp.11-20, 2003. ,
Contributions of microbiome and mechanical deformation to intestinal bacterial overgrowth and inflammation in a human gut-on-a-chip, vol.113, pp.7-15, 2016. ,
The role of interferons in inflammation and inflammasome activation, Frontiers in Immunology, vol.8, p.873, 2017. ,
Modes of p53 regulation, Cell, vol.137, pp.609-622, 2009. ,
Proteome remodelling by the stress sigma factor RpoS/sigma(S) in Salmonella: identification of small proteins and evidence for post-transcriptional regulation, Scientific Reports, vol.7, p.2127, 2017. ,
Quantification of colonic lamina propria cells by means of a morphometric point-counting method, Gastroenterology, vol.94, pp.409-418, 1988. ,
Macrophage nuclear receptors: Emerging key players in infectious diseases, PLoS Pathogens, vol.15, p.1007585, 2019. ,
Entamoeba histolytica disturbs the tight junction complex in human enteric T84 cell layers, FASEB Journal, vol.14, pp.1139-1146, 2000. ,
Dihydrofolate reductase gene amplification-associated shift of differentiation in methotrexateadapted HT-29 cells, The Journal of Cell Biology, vol.115, pp.1409-1418, 1991. ,
Entamoeba histolytica interactions with polarized human intestinal Caco-2 epithelial cells, Infection and Immunity, vol.62, pp.5112-5119, 1994. ,
Development of an improved three-dimensional in vitro intestinal mucosa model for drug absorption evaluation, Tissue Engineering. Part C, Methods, vol.19, pp.708-719, 2013. ,
featureCounts: An efficient general purpose program for assigning sequence reads to genomic features, Bioinformatics, vol.30, pp.923-930, 2014. ,
The molecular signatures database (MSigDB) hallmark gene set collection, Cell Systems, vol.1, pp.417-425, 2015. ,
Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2, Genome Biology, vol.15, p.550, 2014. ,
Colonic mucosal transcriptomic changes in patients with long-duration ulcerative colitis revealed colitis-associated cancer pathways, Journal of Crohn's & Colitis, vol.13, pp.755-763, 2019. ,
Interferon-inducible effector mechanisms in cellautonomous immunity, Nature Reviews. Immunology, vol.12, pp.367-382, 2012. ,
Canonical and Non-Canonical Aspects of JAK-STAT Signaling: Lessons from Interferons for Cytokine Responses, Frontiers in Immunology, vol.8, p.29, 2017. ,
aV integrins and TGF-betainduced EMT: a circle of regulation, Journal of Cellular and Molecular Medicine, vol.16, pp.445-455, 2012. ,
Regulation of virulence of Entamoeba histolytica, Annual Review of Microbiology, vol.68, pp.493-520, 2014. ,
A whole-genome RNAi screen uncovers a novel role for human potassium channels in cell killing by the parasite Entamoeba histolytica, Scientific Reports, vol.5, p.13613, 2015. ,
A proteomic and cellular analysis of uropods in the pathogen Entamoeba histolytica, PLoS Neglected Tropical Diseases, vol.5, p.1002, 2011. ,
URL : https://hal.archives-ouvertes.fr/inserm-00691403
Checkpoint control and cancer, Oncogene, vol.31, pp.2601-2613, 2012. ,
Entamoeba histolytica: Differential gene expression during programmed cell death and identification of early pro-and anti-apoptotic signals, Experimental Parasitology, vol.126, pp.497-505, 2010. ,
The macrophage migration inhibitory factor homolog of Entamoeba histolytica binds to and immunomodulates host macrophages, Infection and Immunity, vol.82, pp.3523-3530, 2014. ,
The NLRP3 inflammasome is a pathogen sensor for invasive Entamoeba histolytica via activation of alpha5beta1 integrin at the macrophage-amebae intercellular junction, PLoS Pathogens, p.1004887, 2015. ,
A complex barcode underlies the heterogeneous response of p53 to stress, Nature Reviews. Molecular Cell Biology, vol.9, pp.702-712, 2008. ,
Cell binding function of E-cadherin is regulated by the cytoplasmic domain, The EMBO Journal, vol.7, pp.3679-3684, 1988. ,
Utilization of different omic approaches to unravel stress response mechanisms in the parasite Entamoeba histolytica, Frontiers in Cellular and Infection Microbiology, vol.8, p.175, 2016. ,
Good Caco-2 cell culture practices, Toxicology In Vitro, vol.26, pp.1243-1246, 2012. ,
Gastrointestinal cell lines form polarized epithelia with an adherent mucus layer when cultured in semi-wet interfaces with mechanical stimulation, PLoS One, vol.8, p.68761, 2013. ,
Exosome-mediated extracellular release of polyadenylate-binding protein 1 in human metastatic duodenal cancer cells, Proteomics, vol.14, pp.2297-2306, 2014. ,
Human cell models to study small intestinal functions: recapitulation of the crypt-villus axis, Microscopy Research and Technique, vol.49, pp.394-406, 2000. ,
The mucus and mucins of the goblet cells and enterocytes provide the first defense line of the gastrointestinal tract and interact with the immune system, Immunological Reviews, vol.260, pp.8-20, 2014. ,
The alpha-helical regions of KERP1 are important in Entamoeba histolytica adherence to human cells, Scientific Reports, vol.3, p.1171, 2013. ,
Intracellular traffic of the lysine and glutamic acid rich protein KERP1 reveals features of endomembrane organization in Entamoeba histolytica, Cellular Microbiology, vol.18, pp.1134-1152, 2016. ,
The extracellular matrix in IBD: A dynamic mediator of inflammation, Current Opinion in Gastroenterology, vol.33, pp.234-238, 2017. ,
The bittersweet interface of parasite and host: lectin-carbohydrate interactions during human invasion by the parasite Entamoeba histolytica, Annual Review of Microbiology, vol.56, pp.39-64, 2002. ,
Entamoeba histolytica under oxidative stress: What countermeasure mechanisms are in place?, Cell, vol.6, p.44, 2017. ,
The MITF family of transcription factors: Role in endolysosomal biogenesis, Wnt signaling, and oncogenesis, Pharmacological Research, vol.99, pp.36-43, 2015. ,
Differentiation of gastrointestinal cell lines by culture in semi-wet interface, Methods in Molecular Biology, vol.1817, pp.41-46, 2018. ,
Tissue destruction and invasion by Entamoeba histolytica, Trends in Parasitology, vol.27, pp.254-263, 2011. ,
limma powers differential expression analyses for RNAsequencing and microarray studies, The Journal of Biological Chemistry, vol.43, pp.4749-4753, 2009. ,
ER stress-induced cell death mechanisms, Biochimica et Biophysica Acta, vol.1833, pp.3460-3470, 2013. ,
Interferongamma: An overview of signals, mechanisms and functions, Journal of Leukocyte Biology, vol.75, pp.163-189, 2004. ,
The mammalian unfolded protein response, Annual Review of Biochemistry, vol.74, pp.739-789, 2005. ,
A lysineand glutamic acid-rich protein, KERP1, from Entamoeba histolytica binds to human enterocytes, Cellular Microbiology, vol.7, pp.569-579, 2005. ,
Human intestinal epithelial cells produce proinflammatory cytokines in response to infection in a SCID mouse-human intestinal xenograft model of amebiasis, Infection and Immunity, vol.65, pp.1631-1639, 1997. ,
Mutations causing slow-channel myasthenia reveal that a valine ring in the channel pore of muscle AChR is optimized for stabilizing channel gating, Human Mutation, vol.37, pp.1051-1059, 2016. ,
Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources, Nature Protocols, vol.4, pp.44-57, 2009. ,
Intestinal barrier dysfunction orchestrates the onset of inflammatory host-microbiome cross-talk in a human gut inflammation-on-a-chip, Proceedings of the National Academy of Sciences of the United States of America, vol.115, pp.10539-10547, 2018. ,
, A review of the global burden, new diagnostics, and current therapeutics for amebiasis. Open Forum Infectectious Diseases, vol.5, p.161, 2018.
Regulation of cytokine production by the unfolded protein response; Implications for infection and autoimmunity, Frontiers in Immunology, vol.9, p.422, 2018. ,
TEER measurement techniques for in vitro barrier model systems, Journal of Laboratory Automation, vol.20, pp.107-126, 2015. ,
Regulatory role of small nucleolar RNAs in human diseases, BioMed Research International, p.206849, 2015. ,
The macrophage cytoskeleton acts as a contact sensor upon interaction with Entamoeba histolytica to trigger IL-1beta secretion, PLoS Pathogens, p.1006592, 2017. ,
Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles, vol.102, pp.15545-15550, 2005. ,
Long intergenic noncoding RNA 00511 acts as an oncogene in non-smallcell lung cancer by binding to EZH2 and suppressing p57, Molecular Therapy-Nucleic Acids, vol.5, p.385, 2016. ,
Effects of CapG overexpression on agonist-induced motility and second messenger generation, The Journal of Cell Biology, vol.129, pp.147-156, 1995. ,
The parasite Entamoeba histolytica exploits the activities of human matrix metalloproteinases to invade colonic tissue, Nature Communications, vol.5, p.5142, 2014. ,
Newly visualized fibrillar collagen scaffolds dictate Entamoeba histolytica invasion route in the human colon, Cellular Microbiology, vol.14, pp.609-621, 2012. ,
Identification of the virulence landscape essential for Entamoeba histolytica invasion of the human colon, PLoS Pathogens, vol.9, p.1003824, 2013. ,
The MaxQuant computational platform for mass spectrometry-based shotgun proteomics, Nature Protocols, vol.11, pp.2301-2319, 2016. ,
Proteome analysis of excretory-secretory proteins of Entamoeba histolytica HM1:IMSS via LC, Clinical Proteomics, p.33, 2016. ,
Antimicrobial host defensins-Specific antibiotic activities and innate defense modulation, Frontiers in Immunology, vol.3, p.249, 2012. ,
2016 update of the PRIDE database and its related tools, Nucleic Acids Research, vol.44, p.11033, 2016. ,
Formation of human colonic crypt array by application of chemical gradients across a shaped epithelial monolayer, Cellular and Molecular Gastroenterology and Hepatology, vol.5, pp.113-130, 2018. ,
A method for the quantitative recovery of protein in dilute solution in the presence of detergents and lipids, Analytical Biochemistry, vol.138, pp.141-143, 1984. ,
DAPAR & ProStaR: Software to perform statistical analyses in quantitative discovery proteomics, Bioinformatics, vol.33, pp.135-136, 2017. ,
URL : https://hal.archives-ouvertes.fr/hal-02191349
Camera: A competitive gene set test accounting for inter-gene correlation, Nucleic Acids Research, vol.40, p.133, 2012. ,
Human neutrophil defensins selectively chemoattract naive T and immature dendritic cells, Journal of Leukocyte Biology, vol.68, pp.9-14, 2000. ,
Apical cytoskeletons and junctional complexes as a combined system in epithelial cell sheets, Annals of the New York Academy of Sciences, pp.32-43, 1405. ,
A TEM protocol for quality assurance of in vitro cellular barrier models and its application to the assessment of nanoparticle transport mechanisms across barriers, Analyst, vol.140, pp.83-97, 2015. ,
Circadian regulator NR1D2 regulates glioblastoma cell proliferation and motility. Oncogene, vol.37, pp.4838-4853, 2018. ,
, SUPPORTING INFORMATION Additional supporting information may be found online in the Supporting Information section at the end of this article. How to cite this article
Insights into amebiasis using a human 3D-intestinal model, Cellular Microbiology, 2020. ,
URL : https://hal.archives-ouvertes.fr/pasteur-02555570
,