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1. Farnesyltransferase inhibition overcomes oncogene-addicted non-small cell lung cancer adaptive resistance to targeted therapies

Author

Figarol, Sarah, Delahaye, Célia, Gence, Rémi, Doussine, Aurélia, Cerapio, Juan Pablo, Brachais, Mathylda, Tardy, Claudine, Béry, Nicolas, Asslan, Raghda, Colinge, Jacques, Villemin, Jean-Philippe, Maraver, Antonio, Ferrer, Irene, Paz-Ares, Luis, Kessler, Linda, Burrows, Francis, Lajoie-Mazenc, Isabelle, Dongay, Vincent, Morin, Clara, Florent, Amélie, Pagano, Sandra, Taranchon-Clermont, Estelle, Casanova, Anne, Pradines, Anne, Mazieres, Julien, Favre, Gilles, and Calvayrac, Olivier

Published
2024
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8. Figure S2 from Cytidine Deaminase Resolves Replicative Stress and Protects Pancreatic Cancer from DNA-Targeting Drugs

Author

Lumeau, Audrey, primary, Bery, Nicolas, primary, Francès, Audrey, primary, Gayral, Marion, primary, Labrousse, Guillaume, primary, Ribeyre, Cyril, primary, Lopez, Charlene, primary, Nevot, Adele, primary, El Kaoutari, Abdessamad, primary, Hanoun, Naima, primary, Sarot, Emeline, primary, Perrier, Marion, primary, Pont, Frederic, primary, Cerapio, Juan-Pablo, primary, Fournié, Jean-Jacques, primary, Lopez, Frederic, primary, Madrid-Mencia, Miguel, primary, Pancaldi, Vera, primary, Pillaire, Marie-Jeanne, primary, Bergoglio, Valerie, primary, Torrisani, Jerome, primary, Dusetti, Nelson, primary, Hoffmann, Jean-Sebastien, primary, Buscail, Louis, primary, Lutzmann, Malik, primary, and Cordelier, Pierre, primary

Published
2024
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9. Supplementary Table from Cytidine Deaminase Resolves Replicative Stress and Protects Pancreatic Cancer from DNA-Targeting Drugs

Author

Lumeau, Audrey, primary, Bery, Nicolas, primary, Francès, Audrey, primary, Gayral, Marion, primary, Labrousse, Guillaume, primary, Ribeyre, Cyril, primary, Lopez, Charlene, primary, Nevot, Adele, primary, El Kaoutari, Abdessamad, primary, Hanoun, Naima, primary, Sarot, Emeline, primary, Perrier, Marion, primary, Pont, Frederic, primary, Cerapio, Juan-Pablo, primary, Fournié, Jean-Jacques, primary, Lopez, Frederic, primary, Madrid-Mencia, Miguel, primary, Pancaldi, Vera, primary, Pillaire, Marie-Jeanne, primary, Bergoglio, Valerie, primary, Torrisani, Jerome, primary, Dusetti, Nelson, primary, Hoffmann, Jean-Sebastien, primary, Buscail, Louis, primary, Lutzmann, Malik, primary, and Cordelier, Pierre, primary

Published
2024
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10. Data from Cytidine Deaminase Resolves Replicative Stress and Protects Pancreatic Cancer from DNA-Targeting Drugs

Author

Lumeau, Audrey, primary, Bery, Nicolas, primary, Francès, Audrey, primary, Gayral, Marion, primary, Labrousse, Guillaume, primary, Ribeyre, Cyril, primary, Lopez, Charlene, primary, Nevot, Adele, primary, El Kaoutari, Abdessamad, primary, Hanoun, Naima, primary, Sarot, Emeline, primary, Perrier, Marion, primary, Pont, Frederic, primary, Cerapio, Juan-Pablo, primary, Fournié, Jean-Jacques, primary, Lopez, Frederic, primary, Madrid-Mencia, Miguel, primary, Pancaldi, Vera, primary, Pillaire, Marie-Jeanne, primary, Bergoglio, Valerie, primary, Torrisani, Jerome, primary, Dusetti, Nelson, primary, Hoffmann, Jean-Sebastien, primary, Buscail, Louis, primary, Lutzmann, Malik, primary, and Cordelier, Pierre, primary

Published
2024
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11. Integrated spatial and multimodal single‐cell transcriptomics reveal patient‐dependent cell heterogeneity in splenic marginal zone lymphoma.

Author

Cerapio, Juan Pablo, Gravelle, Pauline, Quillet‐Mary, Anne, Valle, Carine, Martins, Frederic, Franchini, Don‐Marc, Syrykh, Charlotte, Brousset, Pierre, Traverse‐Glehen, Alexandra, Ysebaert, Loic, Fournie, Jean‐Jacques, and Laurent, Camille

Subjects
MUCOSA-associated lymphoid tissue lymphoma, TRANSCRIPTOMES, CELL communication, BIOLOGICAL variation, HETEROGENEITY, BLOOD testing
Abstract

Biological hallmarks of splenic marginal zone lymphoma (SMZL) remain poorly described. Herein, we performed in‐depth SMZL characterization through multimodal single‐cell analyses of paired blood/spleen samples. The 3'‐single‐cell RNA‐sequencing, Cellular Indexing of Transcriptomes and Epitopes by sequencing, and 5'‐V(D)J single‐cell RNA‐sequencing datasets were integrated to characterize SMZL transcriptome profiles, including B‐cell receptor and T‐cell receptor repertoires. Hyperexpanded B‐cell clones in the spleen were at a memory‐like stage, whereas recirculating tumor B‐cells in blood encompassed multiple differentiation stages, indicating an unexpected desynchronization of the B‐cell maturation program in SMZL cells. Spatial transcriptomics showed the enrichment of T‐effector and T‐follicular helper (TFH) signatures in the nodular subtype of SMZL. This latter also exhibited gene‐based cell–cell interactions suggestive of dynamic crosstalk between TFH and cancer cells in transcriptomics, further substantiated by using imaging mass cytometry. Our findings provide a comprehensive high‐resolution description of SMZL biological hallmarks and characterize, for the first time in situ, inter‐ and intra‐patient heterogeneity at both transcriptomic and protein levels. © 2024 The Authors. The Journal of Pathology published by John Wiley & Sons Ltd on behalf of The Pathological Society of Great Britain and Ireland. [ABSTRACT FROM AUTHOR]

Published
2024
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12. A preoperative risk score based on early recurrence for estimating outcomes after resection of hepatocellular carcinoma in the non-cirrhotic liver

Author

Ruiz, Eloy, primary, Honles, Jorge, additional, Fernández, Ramiro, additional, Uribe, Karla, additional, Cerapio, Juan Pablo, additional, Cancino, Karina, additional, Contreras-Mancilla, Juan, additional, Casavilca-Zambrano, Sandro, additional, Berrospi, Francisco, additional, Pineau, Pascal, additional, and Bertani, Stéphane, additional

Published
2024
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13. Cytidine deaminase resolves replicative stress and protects pancreatic cancer from DNA-targeting drugs

Author

Lumeau, Audrey, primary, Bery, Nicolas, additional, Frances, Audrey, additional, Gayral, Marion, additional, Labrousse, Guillaume, additional, Ribeyre, Cyril, additional, Lopez, Charlène, additional, Nevot, Adèle, additional, El Kaoutari, Abdessamad, additional, Hanoun, Naima, additional, Sarot, Emeline, additional, Perrier, Marion, additional, Pont, Frédéric, additional, Cerapio, Juan Pablo, additional, Fournié, Jean-Jacques, additional, Lopez, Frédéric, additional, Madrid-Mencia, Miguel, additional, Pancaldi, Vera, additional, Pillaire, Marie-Jeanne, additional, Bergoglio, Valérie, additional, Torrisani, Jerome, additional, Dusetti, Nelson, additional, Hoffmann, Jean-Sébastien, additional, Buscail, Louis, additional, Lutzmann, Malik, additional, and Cordelier, Pierre, additional

Published
2024
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15. The STEMRI trial: Magnetic resonance spectroscopy imaging can define tumor areas enriched in glioblastoma stem-like cells

Author

Lemarié, Anthony, primary, Lubrano, Vincent, additional, Delmas, Caroline, additional, Lusque, Amélie, additional, Cerapio, Juan-Pablo, additional, Perrier, Marion, additional, Siegfried, Aurore, additional, Arnauduc, Florent, additional, Nicaise, Yvan, additional, Dahan, Perrine, additional, Filleron, Thomas, additional, Mounier, Muriel, additional, Toulas, Christine, additional, and Cohen-Jonathan Moyal, Elizabeth, additional

Published
2023
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17. The STEMRI trial: magnetic resonance spectroscopy imaging can define tumor areas enriched in glioblastoma-initiating cells

Author

Lemarié, Anthony, primary, Lubrano, Vincent, additional, Delmas, Caroline, additional, Lusque, Amélie, additional, Cerapio, Juan-Pablo, additional, Perrier, Marion, additional, Siegfried, Aurore, additional, Arnauduc, Florent, additional, Nicaise, Yvan, additional, Dahan, Perrine, additional, Filleron, Thomas, additional, Mounier, Muriel, additional, Toulas, Christine, additional, and Moyal, Elizabeth Cohen-Jonathan, additional

Published
2023
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18. Additional file 1 of Single-cell spatial explorer: easy exploration of spatial and multimodal transcriptomics

Author

Pont, Frédéric, Cerapio, Juan Pablo, Gravelle, Pauline, Ligat, Laetitia, Valle, Carine, Sarot, Emeline, Perrier, Marion, Lopez, Frédéric, Laurent, Camille, Fournié, Jean Jacques, and Tosolini, Marie

Abstract

Additional file 1: Figure S1. Single-Cell Spatial Explorer memory usage. Figure S2. Pipeline used to display biological functions in Single-Cell Spatial Explorer. Figure S3. Example using a human cerebellum dataset ( $$10\times$$ 10 × technology). Figure S4. Example using a human spinal cord dataset ( $$10\times$$ 10 × technology). Figure S5. Example using a mouse kidney dataset ( $$10\times$$ 10 × technology). Figure S6. Example using a mouse brain dataset ( $$10\times$$ 10 × technology). Figure S7. Analysis of spatial ATAC-seq experiment. Figure S8. Spatial analysis of lung tissue by CoxMx technology. Table S1. Spatial transcriptomics softwares comparison Supplementary discussion and references: Memory footprint, Compatibility with ImageJ/Fiji and Comparison with existing softwares.

Published
2023
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21. Global DNA hypermethylation pattern and unique gene expression signature in liver cancer from patients with Indigenous American ancestry

Author

Cerapio, Juan Pablo, Marchio, Agnès, Cano, Luis, López, Ignacio, Fournié, Jean-Jacques, Régnault, Béatrice, Casavilca-Zambrano, Sandro, Ruiz, Eloy, Dejean, Anne, Bertani, Stéphane, Pineau, Pascal, Organisation Nucléaire et Oncogenèse / Nuclear Organization and Oncogenesis, Institut Pasteur [Paris] (IP)-Institut National de la Santé et de la Recherche Médicale (INSERM), Sorbonne Université (SU), Centre de Recherches en Cancérologie de Toulouse (CRCT), Université Toulouse III - Paul Sabatier (UT3), Université de Toulouse (UT)-Université de Toulouse (UT)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS), Nutrition, Métabolismes et Cancer (NuMeCan), Université de Rennes (UR)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Génotypage des Eucaryotes (Plate-Forme), Institut Pasteur [Paris] (IP), Instituto Nacional de Enfermedades Neoplasicas [Lima, Pérou] (INEN), Pharmacochimie et Biologie pour le Développement (PHARMA-DEV), Institut de Recherche pour le Développement (IRD)-Institut de Chimie de Toulouse (ICT), Institut de Recherche pour le Développement (IRD)-Université Toulouse III - Paul Sabatier (UT3), Université de Toulouse (UT)-Université de Toulouse (UT)-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS)-Institut National Polytechnique (Toulouse) (Toulouse INP), Université de Toulouse (UT)-Institut de Recherche pour le Développement (IRD)-Université Toulouse III - Paul Sabatier (UT3), Université de Toulouse (UT), Institut de Recherche pour le Développement (IRD), Alliance pour les sciences de la vie et de la santé (Aviesan)., European Project: 823935,H2020-MSCA-RISE-2018,COCLICAN(2018), Institut Pasteur [Paris]-Institut National de la Santé et de la Recherche Médicale (INSERM), Centre National de la Recherche Scientifique (CNRS)-Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Institut National de la Santé et de la Recherche Médicale (INSERM), Centre d'Innovation et Recherche Technologique / Center for Innovation and Technological Research, Institut Pasteur [Paris], Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Institut de Chimie de Toulouse (ICT-FR 2599), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Institut de Recherche pour le Développement (IRD)-Institut National Polytechnique (Toulouse) (Toulouse INP), Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD)-Institut National Polytechnique (Toulouse) (Toulouse INP), Université Fédérale Toulouse Midi-Pyrénées-Institut de Recherche pour le Développement (IRD), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS), Université de Rennes 1 (UR1), Université de Rennes (UNIV-RENNES)-Université de Rennes (UNIV-RENNES)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Institut National Polytechnique (Toulouse) (Toulouse INP), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD)-Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Institut de Chimie du CNRS (INC)-Institut National Polytechnique (Toulouse) (Toulouse INP), Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD)-Institut de Chimie du CNRS (INC)-Institut de Recherche pour le Développement (IRD), Bertani, Stéphane, Collaborative Consortium for the early detection of Liver Cancer - COCLICAN - - H2020-MSCA-RISE-20182018-11-01 - 2022-10-31 - 823935 - VALID, Institut de Recherche pour le Développement (IRD)-Institut de Chimie de Toulouse (ICT-FR 2599), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS)-Institut National Polytechnique (Toulouse) (Toulouse INP), Université Fédérale Toulouse Midi-Pyrénées-Institut de Recherche pour le Développement (IRD)-Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées, Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Université de Rennes 1 (UR1), Université de Rennes (UNIV-RENNES)-Université de Rennes (UNIV-RENNES), and Université Fédérale Toulouse Midi-Pyrénées-Institut de Chimie du CNRS (INC)

Subjects
DNA methylation, MESH: Cancer, [SDV]Life Sciences [q-bio], [SHS.ANTHRO-BIO]Humanities and Social Sciences/Biological anthropology, indigenous people, [SDV.CAN]Life Sciences [q-bio]/Cancer, [SDV.BBM.BM]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Molecular biology, [SDV.MHEP.HEG]Life Sciences [q-bio]/Human health and pathology/Hépatology and Gastroenterology, [SDV.BBM.BM] Life Sciences [q-bio]/Biochemistry, Molecular Biology/Molecular biology, [SDV.MHEP.HEG] Life Sciences [q-bio]/Human health and pathology/Hépatology and Gastroenterology, digestive system diseases, [SHS.ANTHRO-BIO] Humanities and Social Sciences/Biological anthropology, MESH: Comparative Genomics, liver cancer, integrative genomics, [SDV.CAN] Life Sciences [q-bio]/Cancer, [SDV.BBM.GTP]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Genomics [q-bio.GN], [SDV.BBM.GTP] Life Sciences [q-bio]/Biochemistry, Molecular Biology/Genomics [q-bio.GN], hepatitis B virus, Research Paper
Abstract

International audience; Hepatocellular carcinoma (HCC) usually afflicts individuals in their maturity after a protracted liver disease. Contrasting with this pattern, the age structure of HCC in Andean people displays a bimodal distribution with half of the patients developing HCC in adolescence and early adulthood. To deepen our understanding of the molecular determinants of the disease in this population, we conducted an integrative analysis of gene expression and DNA methylation in HCC developed by 74 Peruvian patients, including 39 adolescents and young adults. While genome-wide hypomethylation is considered as a paradigm in human HCCs, our analysis revealed that Peruvian tumors are associated with a global DNA hypermethylation. Moreover, pathway enrichment analysis of transcriptome data characterized an original combination of signatures. Peruvian HCC forgoes canonical activations of IGF2, Notch, Ras/MAPK, and TGF-β signals to depend instead on Hippo/YAP1, MYC, and Wnt/β-catenin pathways. These signatures delineate a homogeneous subtype of liver tumors at the interface of the proliferative and non-proliferative classes of HCCs. Remarkably, the development of this HCC subtype occurs in patients with one of the four Native American mitochondrial haplogroups A-D. Finally, integrative characterization revealed that Peruvian HCC is apparently controlled by the PRC2 complex that mediates cell reprogramming with massive DNA methylation modulating gene expression and pinpointed retinoid signaling as a potential target for epigenetic therapy.

Published
2021

23. Abstract 2770: Microbiota, mutational landscape and tumor sidedness of colorrectal cancer

Author

Luna, Bruno A. Muñante, primary, Goñas, Jhoysi Casas, additional, Chumpitaz, Manuel, additional, Cerapio, Juan Pablo, additional, Chavez, Marcos Santos, additional, Huerta-Rosario, Mariela, additional, Garcia, Franco Doimi, additional, Gonzales, Juan F. Olivos, additional, Orosco, Claudia Jiménez, additional, Leonardo, Daniel Valdivia, additional, Bolaños, Luis F. Barreda, additional, Delgado, Silvia Neciosup, additional, Oliden, Victor Castro, additional, Beltran, Paola Montenegro, additional, Lopez, Luis Mas, additional, Meza, Eduardo Payet, additional, and Belmar-López, Carolina, additional

Published
2022
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24. Cáncer de hígado: ¿Antigua o nueva amenaza para los jóvenes de países en vía de desarrollo?

Author

Cerapio, Juan Pablo, Contreras Mancilla, Juan, Fernández, Ramiro, Jean Jacques, Fournié, Deharo, Eric, Bertani, Stéphane, Pineau, Pascal, Casavilca, S., Ruiz, Eloy, Cerapio, Juan Pablo, Contreras Mancilla, Juan, Fernández, Ramiro, Jean Jacques, Fournié, Deharo, Eric, Bertani, Stéphane, Pineau, Pascal, Casavilca, S., and Ruiz, Eloy

Abstract

Among the most frequent malignancies worldwide, hepatocellular carcinoma (HCC) is the second leading cause of cancer-related death (1). Its incidence has doubled over the past two decades, with the greatest burden occurring in low- and middle-income countries. Malignant primary liver tumors are usually described as a pathology affecting mainly men older than 40 years with a cirrhotic liver; they have rarely been reported in younger people and usually, in those younger than 40, most commonly hepatoblastoma., Entre as doenças malignas mais comuns no mundo inteiro, o carcinoma hepatocelular (HCC) é a segunda principal causa de morte relacionada ao câncer (1). Sua incidência dobrou nas últimas duas décadas, sendo que a maior carga ocorreu em países de baixa e média renda. Os tumores primários malignos do fígado são geralmente descritos como uma patologia que afeta principalmente homens acima de 40 anos de idade com fígado cirrótico; raramente foram relatados em pessoas mais jovens e geralmente, naqueles com menos de 40 anos, o mais comum é o hepatoblastoma., Entre las neoplasias malignas más frecuentes del mundo, el carcinoma hepatocelular (CHC) es la segunda causa de muerte relacionada con el cáncer (1). Su incidencia se ha duplicado durante las dos últimas décadas y la mayor carga se produce en los países de ingresos bajos y medianos. Los tumores hepáticos primarios malignos suelen describirse como una patología que afecta principalmente a hombres mayores de 40 años con un hígado cirrótico; rara vez se han registrado en personas más jóvenes y normalmente, en menores de 40, lo más común es el hepatoblastoma.

Published
2022

27. The Proteome and Transcriptome of Stress Granules and P-Bodies During Human T Lymphocyte Activation

Author

Curdy, Nicolas, primary, Lanvin, Olivia, additional, Cerapio, Juan-Pablo, additional, Pont, Fréderic, additional, Tosolini, Marie, additional, Sarot, Emeline, additional, Valle, Carine, additional, Saint-Laurent, Nathalie, additional, Lhuillier, Emeline, additional, Laurent, Camille, additional, FOURNIE, Jean Jacques, additional, and Franchini, Don-Marc, additional

Published
2022
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28. Single-Cell RNAseq Profiling of Human γδ T Lymphocytes in Virus-Related Cancers and COVID-19 Disease

Author

Cerapio, Juan Pablo, Perrier, Marion, Pont, Fréderic, Tosolini, Marie, Laurent, Camille, Bertani, Stéphane, Fournie, Jean-Jacques, Pharmacochimie et Biologie pour le Développement (PHARMA-DEV), Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Institut de Chimie de Toulouse (ICT-FR 2599), Institut National Polytechnique (Toulouse) (Toulouse INP), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD)-Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Institut de Chimie du CNRS (INC)-Institut National Polytechnique (Toulouse) (Toulouse INP), Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD)-Institut de Chimie du CNRS (INC)-Institut de Recherche pour le Développement (IRD), Centre de Recherches en Cancérologie de Toulouse (CRCT), Université de Toulouse (UT)-Université de Toulouse (UT)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS), Institut Universitaire du Cancer de Toulouse - Oncopole (IUCT Oncopole - UMR 1037), Université de Toulouse (UT)-Université de Toulouse (UT)-Centre Hospitalier Universitaire de Toulouse (CHU Toulouse)-Institut National de la Santé et de la Recherche Médicale (INSERM), Institut Carnot Lymphome (CALYM), Institut de Recherche pour le Développement (IRD)-Institut de Chimie de Toulouse (ICT), Institut de Recherche pour le Développement (IRD)-Université Toulouse III - Paul Sabatier (UT3), Université de Toulouse (UT)-Université de Toulouse (UT)-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS)-Institut National Polytechnique (Toulouse) (Toulouse INP), Université de Toulouse (UT)-Institut de Recherche pour le Développement (IRD)-Université Toulouse III - Paul Sabatier (UT3), and Université de Toulouse (UT)

Subjects
Adult, Herpesvirus 4, Human, tumor, Trajectory inference, γδ T lymphocytes, [SDV.CAN]Life Sciences [q-bio]/Cancer, lymphocyte, Lymphocyte Activation, Severity of Illness Index, Microbiology, Article, Tumor-infiltrating lymphocytes, Lymphocytes, Tumor-Infiltrating, T-Lymphocyte Subsets, Neoplasms, [SDV.BBM.GTP]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Genomics [q-bio.GN], Humans, Lymphocyte Count, RNA-Seq, human, Immune response, Child, Lung, Papillomaviridae, Cancer, COVID-19, Cell Differentiation, Receptors, Antigen, T-Cell, gamma-delta, differentiation, [SDV.IMM.IMM]Life Sciences [q-bio]/Immunology/Immunotherapy, Hodgkin Disease, [SDV.BIBS]Life Sciences [q-bio]/Quantitative Methods [q-bio.QM], Systemic Inflammatory Response Syndrome, QR1-502, gammadelta, single cell, [SDV.IMM.IA]Life Sciences [q-bio]/Immunology/Adaptive immunology, Head and Neck Neoplasms, trajectory, [SDV.MP.VIR]Life Sciences [q-bio]/Microbiology and Parasitology/Virology, Single-Cell Analysis, Bronchoalveolar Lavage Fluid, transcriptome, Single-cell transcriptomics
Abstract

The detailed characterization of human γδ T lymphocyte differentiation at the single-cell transcriptomic (scRNAseq) level in tumors and patients with coronavirus disease 2019 (COVID-19) requires both a reference differentiation trajectory of γδ T cells and a robust mapping method for additional γδ T lymphocytes. Here, we incepted such a method to characterize thousands of γδ T lymphocytes from (n = 95) patients with cancer or adult and pediatric COVID-19 disease. We found that cancer patients with human papillomavirus-positive head and neck squamous cell carcinoma and Epstein–Barr virus-positive Hodgkin’s lymphoma have γδ tumor-infiltrating T lymphocytes that are more prone to recirculate from the tumor and avoid exhaustion. In COVID-19, both TCRVγ9 and TCRVγnon9 subsets of γδ T lymphocytes relocalize from peripheral blood mononuclear cells (PBMC) to the infected lung tissue, where their advanced differentiation, tissue residency, and exhaustion reflect T cell activation. Although severe COVID-19 disease increases both recruitment and exhaustion of γδ T lymphocytes in infected lung lesions but not blood, the anti-IL6R therapy with Tocilizumab promotes γδ T lymphocyte differentiation in patients with COVID-19. PBMC from pediatric patients with acute COVID-19 disease display similar γδ T cell lymphopenia to that seen in adult patients. However, blood γδ T cells from children with the COVID-19-related multisystem inflammatory syndrome are not lymphodepleted, but they are differentiated as in healthy PBMC. These findings suggest that some virus-induced memory γδ T lymphocytes durably persist in the blood of adults and could subsequently infiltrate and recirculate in tumors.

Published
2021

29. COMUNIDADES DE PARÁSITOS EN EL TRAMBOLLO LABRISOMUS PHILIPPII (STEINDACHNER, 1866) (PERCIFORMES: LABRISOMIDAE) DE LA ZONA COSTERA DE CHORRILLOS, LIMA, PERÚ

Author

Iannacone, José, Cerapio, Juan Pablo, Cárdenas-Callirgos, Jorge, Sánchez, Karenth, Briceño, Fiorella, and Dueñas, Anthony

Subjects
Zoogonus, Perú, peces marinos, Corynosoma, Helicometra, marine fish, Helicometra parásitos metazoos, Prosorhynchiodes, metazoan parasites
Abstract

Labrisomus philippii (Steindachner, 1866) is a marine fish species of intertidal-subtidal rocky bottom with distribution on the coast of Peru and Chile. 124 specimens of L. philippii were acquired in the Chorrillos Fishmarket, Lima, Peru, between May to September 2008 to evaluate parasitefauna infracommunities. Fish showed a mean length of 19.1 cm (10 cm to 24.5 cm). Parasites were collected and counted employing conventional techniques. Parasite assemblages were higher for endoparasite (99.3%) than ectoparasites abundance (0.70%). The mean parasite species richness as 1.1 (0-5). Forty-seven hosts were not parasited and seventy-seven hosts showed infection at least with one parasite specie. Eight parasites with the following prevalence and mean abundance were found: an unidentified mixosporea (7.2%; 0.1±0.5), the copepod Acanthochondria syciasis (Kroyer, 1863) (4%; 0.04±0.2), three trematods, Zoogonus rubellus (Olsson, 1868) (32.2; 18.4±128.9), Prosorhynchoides rioplatensis (Szidat, 1970) Lunaschi, 2003 (30.6%; 3.6±12.1), and Helicometra fasciata (Rudolphi, 1819) (13.7%; 4.7±19.4), the larval acanthocephala Corynosoma australe Johnston, 1937 (15.3%; 0.5±2.0), the nematode Proleptus sp. (2.4%; 0.02± 0.1) and a Piscicolidae unidentified gen. specie (1.6%; 0.02± 0.1). Importance concept of Bursey showed that Z. rubellus (1872), H. fasciata (483.7) and P. rioplatensis (390) presented high numeric values. Five of the eight parasites showed an aggregated distribution. Finally, the results obtained of community parasite structure registered on L. philippii twenty years ago in the same locality of study were compared. Labrisomus philippii (Steindachner, 1866) es un pez de fondos rocosos intermareales y submareales con distribución en las costas de Perú y Chile. Entre mayo y septiembre del 2008, 124 especímenes de L. philippii fueron obtenidos desde el Terminal Pesquero de Chorrillos, Lima, Perú para la evaluación cuantitativa de su fauna parasitaria. De los peces estudiados 64 fueron hembras y 60 fueron machos. Los peces mostraron una longitud promedio de 19,1 cm (10 cm a 24,5 cm). Los parásitos fueron colectados y censados empleando las técnicas convencionales. El ensamble parasitario registró una mayor abundancia de endoparásitos (99,3%) que de ectoparásitos (0,7%). El promedio de la riqueza de especies de parásitos fue 1,1 (0 a 5). 47 hospederos no presentaron ningún parásito y 77 hospederos mostraron infección con al menos un solo parásito. Se encontraron ocho parásitos con la siguiente prevalencia y abundancia media (± desviación estandar) un mixosporea no identificado (7,2%; 0,1±0,5), el copépodo Acanthochondria syciasis (Kroyer, 1863) (4%; 0,04±0,2), tres tremátodos, Zoogonus rubellus (Olsson, 1868) (32,2; 18,4±128,9), Prosorhynchoides rioplatensis (Szidat, 1970) Lunaschi, 2003 (30,6%; 3,6±12,1), y Helicometra fasciata (Rudolphi, 1819) (13,7%; 4,7±19,4), el acantocéfalo (larva) Corynosoma australe Johnston, 1937 (15,3%; 0,5±2,0), el nemátodo Proleptus sp. (2,4%; 0,02± 0,1) y un Piscicolidae gen. especie no identificada (1,6%; 0,02± 0,1). El concepto de importancia de Bursey mostró que Z. rubellus (1872), H. fasciata (483,7) y P. rioplatensis (390) presentaron los valores numéricos más altos. Cinco de los ocho parásitos mostraron una distribución agregada. Se compararon los resultados obtenidos con la estructura comunitaria parasitaria registrada 20 años atrás en L. philippii en la misma localidad.

Published
2021

30. Natural occurrence of mycotoxin-producing fusaria in market-bought peruvian cereals

Author

Ducos, Christine, Pinson-Gadais, Laetitia, Chéreau, Sylvain, Richard-Forget, Florence, Vásquez-Ocmín, Pedro, Cerapio, Juan Pablo, Casavilca-Zambrano, Sandro, Ruiz, Eloy, Pineau, Pascal, Bertani, Stephane, Ponts, Nadia, Unité de recherche Mycologie et Sécurité des Aliments (MycSA), Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Pharmacochimie et Biologie pour le Développement (PHARMA-DEV), Institut de Recherche pour le Développement (IRD)-Institut de Chimie de Toulouse (ICT), Institut de Recherche pour le Développement (IRD)-Université Toulouse III - Paul Sabatier (UT3), Université de Toulouse (UT)-Université de Toulouse (UT)-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS)-Institut National Polytechnique (Toulouse) (Toulouse INP), Université de Toulouse (UT)-Institut de Recherche pour le Développement (IRD)-Université Toulouse III - Paul Sabatier (UT3), Université de Toulouse (UT), Organisation Nucléaire et Oncogenèse / Nuclear Organization and Oncogenesis, Institut Pasteur [Paris] (IP)-Institut National de la Santé et de la Recherche Médicale (INSERM), Instituto Nacional de Enfermedades Neoplasicas [Lima, Pérou] (INEN), This research was funded by the French National Alliance for Life Sciences and Health, grant number ENV201408. S.B. has received funding from the European Union’s Horizon 2020 Framework program under the Marie Skłodowska-Curie Actions, agreement number 823935. P.V.O. was supported by a postdoctoral fellowship from the French National Research Institute for Sustainable Development (IRD) (04077858). JPC was a recipient of a doctoral fellowship from the Peruvian National Council for Science and Technology (212-2015-FONDECYT)., and European Project: 823935,H2020-MSCA-RISE-2018,COCLICAN(2018)

Subjects
MESH: Fusarium, MESH: Humans, MESH: Dietary Exposure, MESH: Food Supply, MESH: Zea mays, [SDV]Life Sciences [q-bio], MESH: Consumer Product Safety, MESH: Mycotoxins, MESH: Risk Assessment, MESH: Commerce, corn, [SDV.BV.AP]Life Sciences [q-bio]/Vegetal Biology/Plant breeding, MESH: Edible Grain, Fumonisins B, Peru, [SDE]Environmental Sciences, [SDV.BBM]Life Sciences [q-bio]/Biochemistry, Molecular Biology, MESH: Food Microbiology, MESH: Peru, [SDV.AEN]Life Sciences [q-bio]/Food and Nutrition
Abstract

International audience; Consumption of cereals contaminated by mycotoxins poses health risks. For instance, Fumonisins B, mainly produced by Fusarium verticillioides and Fusarium proliferatum, and the type B trichothecene deoxynivalenol, typically produced by Fusarium graminearum, are highly prevalent on cereal grains that are staples of many cultural diets and known to represent a toxic risk hazard. In Peru, corn and other cereals are frequently consumed on a daily basis under various forms, the majority of food grains being sold through traditional markets for direct consumption. Here, we surveyed mycotoxin contents of market-bought grain samples in order to assess the threat these mycotoxins might represent to Peruvian population, with a focus on corn. We found that nearly one sample of Peruvian corn out of six was contaminated with very high levels of Fumonisins, levels mostly ascribed to the presence of F. verticillioides. Extensive profiling of Peruvian corn kernels for fungal contaminants could provide elements to refine the potential risk associated with Fusarium toxins and help define adapted food safety standards.

Published
2021

31. Phased differentiation of γδ T and T CD8 tumor-infiltrating lymphocytes revealed by single-cell transcriptomics of human cancers

Author

Cerapio, Juan-Pablo, primary, Perrier, Marion, additional, Balança, Camille-Charlotte, additional, Gravelle, Pauline, additional, Pont, Fréderic, additional, Devaud, Christel, additional, Franchini, Don-Marc, additional, Féliu, Virginie, additional, Tosolini, Marie, additional, Valle, Carine, additional, Lopez, Fréderic, additional, Quillet-Mary, Anne, additional, Ysebaert, Loic, additional, Martinez, Alejandra, additional, Delord, Jean Pierre, additional, Ayyoub, Maha, additional, Laurent, Camille, additional, and Fournie, Jean-Jacques, additional

Published
2021
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32. Metallomic Profile in Non-cirrhotic Hepatocellular Carcinoma Supports a Phenomenon of Metal Metabolism Adaptation in Tumor Cells

Author

Cano, Luis, primary, Bertani, Stéphane, additional, Island, Marie-Laure, additional, Cerapio, Juan Pablo, additional, Ruiz, Eloy, additional, Pineau, Pascal, additional, Monbet, Valérie, additional, Boudjema, Karim, additional, Taxa, Luis, additional, Casavilca-Zambrano, Sandro, additional, Ropert, Martine, additional, Turlin, Bruno, additional, and Loréal, Olivier, additional

Published
2020
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33. Early onset and peculiar mutation spectrum of hepatocellular carcinoma suggest an uncommon and unique tumor process in Peru

Author

Bertani, Stephane, Pineau, Pascal, Marchio, Agnès, Rojas, Teresa Rojas, Cerapio, Juan-Pablo, Deharo, Eric, Ruiz, Eloy, Pharmacochimie et Biologie pour le Développement (PHARMA-DEV), Institut de Recherche pour le Développement (IRD)-Institut de Chimie de Toulouse (ICT), Institut de Recherche pour le Développement (IRD)-Université Toulouse III - Paul Sabatier (UT3), Université de Toulouse (UT)-Université de Toulouse (UT)-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS)-Institut National Polytechnique (Toulouse) (Toulouse INP), Université de Toulouse (UT)-Institut de Recherche pour le Développement (IRD)-Université Toulouse III - Paul Sabatier (UT3), Université de Toulouse (UT), Institut de Recherche pour le Développement (IRD)-Institut de Chimie de Toulouse (ICT-FR 2599), Institut National Polytechnique (Toulouse) (Toulouse INP), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD)-Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Institut de Chimie du CNRS (INC)-Institut National Polytechnique (Toulouse) (Toulouse INP), and Université Fédérale Toulouse Midi-Pyrénées-Institut de Chimie du CNRS (INC)

Subjects
body regions, [SDV]Life Sciences [q-bio], education, Peru, hepatocellular carcinoma, humanities
Abstract

International audience; Retrospective cohort study of 1,541 medical charts of patients with HCC at the National Cancer Institute of Peru (1997-2010)

Published
2016

35. A new phthalide derivative from Peperomia nivalis

Author

Vásquez-Ocmín, Pedro, primary, Haddad, Mohamed, additional, Gadea, Alice, additional, Jullian, Valérie, additional, Castillo, Denis, additional, Paloque, Lucie, additional, Cerapio, Juan Pablo, additional, Bourdy, Geneviève, additional, and Sauvain, Michel, additional

Published
2016
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36. Herbal Medicine Practices of Patients With Liver Cancer in Peru: A Comprehensive Study Toward Integrative Cancer Management.

Author

Rojas Rojas, Teresa, Bourdy, Geneviève, Ruiz, Eloy, Cerapio, Juan-Pablo, Pineau, Pascal, Gardon, Jacques, Doimi, Franco, Deparis, Xavier, Deharo, Eric, and Bertani, Stéphane

Abstract

Rationale: The highest burden of liver cancer occurs in developing countries, where the use of herbal medicine (HM) is still widespread. Despite this trend, few studies have been conducted to report HM practices of patients with a hepatic tumor in the developing world. Hence, this study aimed to document the use of HM among patients with liver cancer in Peru. Study Design and Methods: A comparative behavioral epidemiological survey was conducted among liver cancer patients attending the National Cancer Institute of Peru. Information was obtained by direct interviews based on a semistructured questionnaire. The use of HM in Peruvian liver cancer patients was reported, first, regarding general consumption prior to the onset of disease, and second, after the appearance of symptoms that patients would relate to their tumor. In parallel, general consumption of HM in noncancerous people was assessed as a comparative figure. A correspondence analysis was performed to reveal potential associations between the symptoms of cancer and the specific use of HM. Results: Eighty-eight patients and 117 noncancerous individuals participated in the survey. Overall, 68.3% of the people interviewed claimed to use HM on a regular basis for general health preservation. Furthermore, 56.8% of the patients turned to plants first to treat the disorders for which they later came to the cancer care center. When compared with the number of plant species used routinely (n = 78), a selection of plants was made by patients in response to the symptoms of cancer (n = 46). At least 2 plant species, Aloe vera and Morinda citrifolia, were significantly associated with the treatment of liver cancer–related symptoms in the patient group. Conclusions: The present study is the first survey on the HM practices of patients with liver cancer in Latin America and, more broadly, in the developing world. Our findings confirm that HM remains one of the principal primary health care resources in Peru, even for a severe disease like liver cancer. These traditional, complementary and alternative medicine practices should be taken into consideration in Peruvian health programs aiming to educate the population in cancer prevention and treatment, as well as integrative cancer management. [ABSTRACT FROM AUTHOR]

Published
2018
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37. A new phthalide derivative from Peperomia nivalis.

Author

Vásquez-Ocmín, Pedro, Haddad, Mohamed, Gadea, Alice, Jullian, Valérie, Castillo, Denis, Paloque, Lucie, Cerapio, Juan Pablo, Bourdy, Geneviève, and Sauvain, Michel

Abstract

One new phthalide (1) was isolated from aerial parts of Peperomia nivalis, along with known compounds (2 and 3), reported in this species for the first time. The structure of the new compound was characterised on the basis of 1D (1H and 13C NMR), 2D (COSY, HMQC, HMBC and NOESY) NMR and high-resolution mass spectral (HRMS) data. Compound 2 was isolated from a natural source for the first time but previously synthesised. Compounds 1–3 were evaluated for their anti-Helicobacter pylori and anti-Plasmodium falciparum activities. Compound 1 showed moderate activities against H. pylori (MIC 47.5 μM) and the F32-Tanzania strain of P. falciparum (IC50 8.5 μM). Compounds 2 and 3 exhibited weak anti-H. pylori activity (MIC 241.3 and 237.6 μM, respectively) and were inactive against P. falciparum. [ABSTRACT FROM AUTHOR]

Published
2017
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38. Single-Cell RNAseq Profiling of Human γδ T Lymphocytes in Virus-Related Cancers and COVID-19 Disease.

Author

Cerapio JP, Perrier M, Pont F, Tosolini M, Laurent C, Bertani S, and Fournie JJ

Subjects
Adult, Bronchoalveolar Lavage Fluid immunology, COVID-19 complications, Cell Differentiation, Child, Head and Neck Neoplasms immunology, Head and Neck Neoplasms virology, Herpesvirus 4, Human isolation & purification, Hodgkin Disease immunology, Hodgkin Disease virology, Humans, Lung immunology, Lymphocyte Activation, Lymphocyte Count, Lymphocytes, Tumor-Infiltrating metabolism, Lymphocytes, Tumor-Infiltrating physiology, Neoplasms virology, Papillomaviridae isolation & purification, Severity of Illness Index, Single-Cell Analysis, Systemic Inflammatory Response Syndrome immunology, T-Lymphocyte Subsets physiology, COVID-19 immunology, Lymphocytes, Tumor-Infiltrating immunology, Neoplasms immunology, RNA-Seq, Receptors, Antigen, T-Cell, gamma-delta immunology, T-Lymphocyte Subsets immunology, T-Lymphocyte Subsets metabolism
Abstract

The detailed characterization of human γδ T lymphocyte differentiation at the single-cell transcriptomic (scRNAseq) level in tumors and patients with coronavirus disease 2019 (COVID-19) requires both a reference differentiation trajectory of γδ T cells and a robust mapping method for additional γδ T lymphocytes. Here, we incepted such a method to characterize thousands of γδ T lymphocytes from ( n = 95) patients with cancer or adult and pediatric COVID-19 disease. We found that cancer patients with human papillomavirus-positive head and neck squamous cell carcinoma and Epstein-Barr virus-positive Hodgkin's lymphoma have γδ tumor-infiltrating T lymphocytes that are more prone to recirculate from the tumor and avoid exhaustion. In COVID-19, both TCRVγ9 and TCRVγnon9 subsets of γδ T lymphocytes relocalize from peripheral blood mononuclear cells (PBMC) to the infected lung tissue, where their advanced differentiation, tissue residency, and exhaustion reflect T cell activation. Although severe COVID-19 disease increases both recruitment and exhaustion of γδ T lymphocytes in infected lung lesions but not blood, the anti-IL6R therapy with Tocilizumab promotes γδ T lymphocyte differentiation in patients with COVID-19. PBMC from pediatric patients with acute COVID-19 disease display similar γδ T cell lymphopenia to that seen in adult patients. However, blood γδ T cells from children with the COVID-19-related multisystem inflammatory syndrome are not lymphodepleted, but they are differentiated as in healthy PBMC. These findings suggest that some virus-induced memory γδ T lymphocytes durably persist in the blood of adults and could subsequently infiltrate and recirculate in tumors.

Published
2021
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39. Natural Occurrence of Mycotoxin-Producing Fusaria in Market-Bought Peruvian Cereals: A Food Safety Threat for Andean Populations.

Author

Ducos C, Pinson-Gadais L, Chereau S, Richard-Forget F, Vásquez-Ocmín P, Cerapio JP, Casavilca-Zambrano S, Ruiz E, Pineau P, Bertani S, and Ponts N

Subjects
Commerce, Consumer Product Safety, Food Supply, Humans, Peru, Risk Assessment, Dietary Exposure adverse effects, Edible Grain microbiology, Food Microbiology, Fusarium metabolism, Mycotoxins adverse effects, Mycotoxins analysis, Zea mays microbiology
Abstract

Consumption of cereals contaminated by mycotoxins poses health risks. For instance, Fumonisins B, mainly produced by Fusarium verticillioides and Fusarium proliferatum , and the type B trichothecene deoxynivalenol, typically produced by Fusarium graminearum, are highly prevalent on cereal grains that are staples of many cultural diets and known to represent a toxic risk hazard. In Peru, corn and other cereals are frequently consumed on a daily basis under various forms, the majority of food grains being sold through traditional markets for direct consumption. Here, we surveyed mycotoxin contents of market-bought grain samples in order to assess the threat these mycotoxins might represent to Peruvian population, with a focus on corn. We found that nearly one sample of Peruvian corn out of six was contaminated with very high levels of Fumonisins, levels mostly ascribed to the presence of F. verticillioides . Extensive profiling of Peruvian corn kernels for fungal contaminants could provide elements to refine the potential risk associated with Fusarium toxins and help define adapted food safety standards.

Published
2021
Full Text
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