Publications 2018

Personnel Plate-Forme :

Eric Petit, Anne-Laure Besnard, Gilles Lassalle, Jean-Marc Paillisson, Maxime Poupelin, Marine Biget, July Hémon, Sophie Michon-Coudouel, Bernard J Pope, Fleur Hammet, Khalid Mahmood, Daniel J Park - A new genotyping strategy allows assessment of the fine scale population genetic structure of a highly invasive species. 22/10/2018, GDR InvaBio.

Nathan Vannier, Cendrine Mony, Anne-Kristel Bittebiere, Sophie Michon-Coudouel, Marine Biget, and Philippe Vandenkoornhuyse. A microorganisms’ journey between plant generations. Microbiome. 2018; 6: 79. Published online 2018 Apr 26. doi:  10.1186/s40168-018-0459-7. PMCID: PMC5918900. PMID: 29695286

An-An Yin, Nan Lu, Amandine Etcheverry, Marc Aubry, Jill Barnholtz-Sloan, Lu-Hua Zhang, Jean Mosser, Wei Zhang, Xiang Zhang, Yu-He Liu, Ya-Long He - CNS Neurosci Ther. 2018 Mar;24(3):167-177. doi: 10.1111/cns.12786. Epub 2018 Jan 19.

Lhomond S, Avril T, Dejeans N, Voutetakis K, Doultsinos D, McMahon M, Pineau R, Obacz J, Papadodima O, Jouan F, Bourien H, Logotheti M, Jégou G, Pallares-Lupon N, Schmit K, Le Reste PJ, Etcheverry A, Mosser J, Barroso K, Vauléon E, Maurel M, Samali A, Patterson JB, Pluquet O, Hetz C, Quillien V, Chatziioannou A, Chevet E. - EMBO Mol Med. 2018 Jan 8. pii: e7929. doi: 10.15252/emmm.201707929.

Keller J., Imperial J., Ruiz-Argueso T., Privet P., Lima O., Michon-Coudouel S., Biget M., Salmon A., et al. RNA sequencing and analysis of three Lupinus nodulomes provide new insights into specific host-symbiont relationships with compatible and incompatible Bradyrhizobium strains. Plant Science 266 (2018): 102-116

Alexandra Frelau, Marc Pracht, Samuel Le Sourd, Alexandra Lespagnol, Romain Corre, Cédric Ménard, Karin Tarte, Jean Mosser, Julien Edeline - Predictive biomarkers of response to immune checkpoint inhibitors (Biomarqueurs prédictifs de réponse aux inhibiteurs de points de contrôle immuns) - Bulletin du Cancer. 2018 Pubished online 07 Mar 2018. PMID:29525053

Plate-forme citée ou remerciée :

Blanca Gómez-Escoda and  Pei-Yun Jenny Wu - The organization of genome duplication is a critical determinant of the landscape of genome maintenance - . 2018 Aug; 28(8): 1179–1192. doi:  10.1101/gr.224527.117 - PMCID: PMC6071636 - PMID: 29934426

Anthony Perrot, Conceptualization, Data curation, Investigation, Methodology, Writing – review & editing, Christopher Lee Millington, Investigation, Methodology, Writing – review & editing,¤ Blanca Gómez-Escoda, Formal analysis, Investigation, Methodology, Writing – review & editing, Diane Schausi-Tiffoche, Investigation, and Pei-Yun Jenny Wu, Conceptualization, Funding acquisition, Methodology, Project administration, Supervision, Visualization, Writing – original draft, Writing – review & editing*. - CDK activity provides temporal and quantitative cues for organizing genome duplication - PLoS Genet. 2018 Feb; 14(2): e1007214. Published online 2018 Feb 21. doi: 10.1371/journal.pgen.1007214. PMCID: PMC5821308

Aude Merdrignac, Gaëlle Angenard, Coralie Allain, Kilian Petitjean, Damien Bergeat, Pascale Bellaud, Allain Fautrel, Bruno Turlin, Bruno Clément, Steven Dooley, Laurent Sulpice, Karim Boudjema, and Cédric Coulouarn - A novel transforming growth factor beta-induced long noncoding RNA promotes an inflammatory microenvironment in human intrahepatic cholangiocarcinoma - Hepatol Commun. 2018 Mar; 2(3): 254–269. Published online 2018 Jan 30. doi: 10.1002/hep4.1142 PMCID: PMC5831019


Publications 2017

Personnel Plate-Forme :

Yin A, Etcheverry A, He Y, Aubry M, Barnholtz-Sloan J, Zhang L, Mao X, Chen W, Liu B, Zhang W, Mosser J, Zhang X - Integrative analysis of novel hypomethylation and gene expression signatures in glioblastomas - Oncotarget. 2017 Jul 11;8(52):89607-89619. doi: 10.18632/oncotarget.19171.

Tony Avril, Amandine Etcheverry, Raphaël Pineau, Joanna Obacz, Gwénaële Jegou, Florence Jouan, Pierre-Jean Le Reste, Masumeh Hatami, Rivka R. Colen, Brett L. Carlson, Paul A. Decker, Jann N. Sarkaria, Elodie Vauléon, Dan Cristian Chiforeanu, Anne Clavreul, Jean Mosser, Eric Chevet and Véronique Quillien - CD90 Expression Controls Migration and Predicts Dasatinib Response in Glioblastoma - Clin Cancer Res. 2017 Dec 1;23(23):7360-7374 - DOI: 10.1158/1078-0432.CCR-17-1549

Leduc C, Merlio JP, Besse B, Blons H, Debieuvre D, Bringuier PP, Monnet I, Rouquette I, Fraboulet-Moreau S, Lemoine A, Pouessel D, Mosser J, Vaylet F, Langlais A, Missy P, Morin F, Moro-Sibilot D, Cadranel J, Barlesi F, Beau-Faller M - Clinical and molecular characteristics of non-small-cell lung cancer (NSCLC) harboring EGFR mutation: results of the nationwide French Cooperative Thoracic Intergroup (IFCT) program. French Cooperative Thoracic Intergroup (IFCT)Ann Oncol. 2017 Nov 1;28(11):2715-2724. doi: 10.1093/annonc/mdx404.

Charles Ricordel, Alexandra Lespagnol, Francisco Llamas-Gutierrez, Marie de Tayrac, Mallorie Kerjouan, Alice Fievet, Houda Hamdi-Rozé, Amyrat Aliouat, Benoit Desrues, Jean Mosser, Hervé Léna - Mutational Landscape of DDR2 Gene in Lung Squamous Cell Carcinoma Using Next - generation Sequencing - Clin Lung Cancer 2017 Oct 19. pii: S1525-7304(17)30280-2. doi: 10.1016/j.cllc.2017.10.006

Kammerer-Jacquet SF, Brunot A, Bensalah K, Campillo-Gimenez B, Lefort M, Bayat S, Ravaud A, Dupuis F, Yacoub M, Verhoest G, Peyronnet B, Mathieu R, Lespagnol A, Mosser J, Edeline J, Laguerre B, Bernhard JC, Rioux-Leclercq N - Hilar fat infiltration: A new prognostic factor in metastatic clear cell renal cell carcinoma with first-line sunitinib treatment.- Urol Oncol. 2017 Oct;35(10):603.e7-603.e14. doi: 10.1016/j.urolonc.2017.05.015.

Kammerer-Jacquet SF, Medane S, Bensalah K, Bernhard JC, Yacoub M, Dupuis F, Ravaud A, Verhoest G, Mathieu R, Peyronnet B, Brunot A, Laguerre B, Lespagnol A, Mosser J, Dugay F, Belaud-Rotureau MA, Rioux-Leclercq N - Correlation of c-MET Expression with PD-L1 Expression in Metastatic Clear Cell Renal Cell Carcinoma Treated by Sunitinib First-Line Therapy - Target Oncol. 2017 Aug;12(4):487-494. doi: 10.1007/s11523-017-0498-1.

Tomasini P, Brosseau S, Mazières J, Merlio JP, Beau-Faller M, Mosser J, Wislez M, Ouafik L, Besse B, Rouquette I, Debieuvre D, Escande F, Westeel V, Audigier-Valette C, Missy P, Langlais A, Morin F, Moro-Sibilot D, Zalcman G, Barlesi F - EGFR tyrosine kinase inhibitors versus chemotherapy in EGFR wild-type pre-treated advanced nonsmall cell lung cancer in daily practice - Eur Respir J. 2017 Aug 10;50(2). pii: 1700514. doi: 10.1183/13993003.00514-2017.

Amandine Lê Van, Achim Quaiser, Marie Duhamel, Sophie Michon-Coudouel, Alexis Dufresne and Philippe Vandenkoornhuyse - Ecophylogeny of the endospheric root fungal microbiome of co-occurring Agrostis stolonifera - Published online 2017 Jun 8. doi:  10.7717/peerj.3454 - PMCID: PMC5466812 - PeerJ. 2017; 5: e3454.

Kammerer-Jacquet SF, Brunot A, Pladys A, Bouzille G, Dagher J, Medane S, Peyronnet B, Mathieu R, Verhoest G, Bensalah K, Edeline J, Laguerre B, Lespagnol A, Mosser J, Dugay F, Belaud-Rotureau MA, Rioux-Leclercq N. - Synchronous Metastatic Clear-Cell Renal Cell Carcinoma: A Distinct Morphologic, Immunohistochemical, and Molecular Phenotype. Clin Genitourin Cancer. 2017 Feb;15(1):e1-e7. doi: 10.1016/j.clgc.2016.06.007.
Guibert N, Barlesi F, Descourt R, Léna H, Besse B, Beau-Faller M, Mosser J, Pichon E, Merlio JP, Ouafik L, Guichard F, Mastroianni B, Moreau L, Wdowik A, Sabourin JC, Lemoine A, Missy P, Langlais A, Moro-Sibilot D, Mazieres J. - Characteristics and Outcomes of Patients with Lung Cancer Harboring Multiple Molecular Alterations: Results from the IFCT Study Biomarkers France. J Thorac Oncol. 2017 Feb 9. pii: S1556-0864(17)30097-7. doi: 10.1016/j.jtho.2017.02.001.

Kammerer-Jacquet SF, Crouzet L, Brunot A, Dagher J, Pladys A, Edeline J, Laguerre B, Peyronnet B, Mathieu R, Verhoest G, Patard JJ, Lespagnol A, Mosser J, Denis M, Messai Y9, Gad-Lapiteau S, Chouaib S, Belaud-Rotureau MA, Bensalah K, Rioux-Leclercq N. - Independent association of PD-L1 expression with noninactivated VHL clear cell renal cell carcinoma-A finding with therapeutic potential. Int J Cancer. 2017 Jan 1;140(1):142-148. doi: 10.1002/ijc.30429

Plate-forme citée ou remerciée :
Julie Bronsard, Gaetan Pascreau, Mohamed Sassi, Tony Mauro, Yoann Augagneur  and Brice Felden - sRNA and cis-antisense sRNA identification in Staphylococcus aureus highlights an unusual sRNA gene cluster with one encoding a secreted peptide - Published online 2017 Jul 4. doi:  10.1038/s41598-017-04786-3 - PMCID: PMC5496865 - Sci Rep. 2017; 7: 4565.

Mahé EA, Madigou T, Sérandour AA, Bizot M, Avner S, Chalmel F, Palierne G, Métivier R, Salbert G. - Cytosine modifications modulate the chromatin architecture of transcriptional enhancers. Genome Res. 2017 Apr 10. pii: gr.211466.116. doi: 10.1101/gr.211466.116.


Publications 2016

Personnel Plate-Forme :

Quaiser A., Dufresne A., Michon-Coudouel S., Biget M., Vandenkoornhuyse P. Large-scale sequence-based information- novel understanding of ecology and novel avenues to test ecological hypotheses. In: Terrestrial Ecosystem Research Infrastructures: Challenges, New developments and Perspectives. Loescher, H (ed), CRC Press, Taylor & Francis Group (2016).

Caillot O, Aubry M, Duros S, Boyer L, Van Valenberg C, Levêque J, Lavoué V (2016) - Impact of the French 3rd and 4th generation pill scare in women seeking termination of pregnancy. J Gynecol Obstet Biol Reprod (Paris). pii: S0368-2315(16)30010-2. doi: 10.1016/j.jgyn.2016.03.014.

Bonnin N, Armandy E, Carras J, Ferrandon S, Battiston-Montagne P, Aubry M, Guihard S7, Meyronet D, Foy JP, Saintigny P, Ledrappier S, Jung A, Rimokh R, Rodriguez-Lafrasse C, Poncet D (2016) - MiR-422a promotes loco-regional recurrence by targeting NT5E/CD73 in head and neck squamous cell carcinoma. Oncotarget. 2016 Jul 12;7(28):44023-44038. doi: 10.18632/oncotarget.9829.

Plate-forme citée ou remerciée :

Sulpice L, Desille M, Turlin B, Fautrel A, Boudjema K, Clément B, and Coulouarn C (2016) - Gene expression profiling of the tumor microenvironment in human intrahepatic cholangiocarcinoma. Genom Data.; 7: 229–232. doi:  10.1016/j.gdata.2016.01.012. PMCID: PMC4778675

Ballaud F, Dufresne A, Francez A-J, Colombet J, Sime-Ngando T and Quaiser A (2016) - Dynamics of Viral Abundance and Diversity in a Sphagnum-Dominated Peatland: Temporal Fluctuations Prevail Over Habitat. Front. Microbiol. 6:1494. doi: 10.3389/fmicb.2015.01494

Yonis Soubere Mahamoud, Meziane Aite, Catherine Martin, Maxim Zhadobov, Ronan Sauleau, Yves Le Dréan, Denis Habauzit (2016) - Additive Effects of Millimeter Waves and 2-Deoxyglucose Co-Exposure on the Human Keratinocyte Transcriptome. PLOS ONE doi:10.1371/journal.pone.0160810 - PDF
Mebarki S, Désert R, Sulpice L, Sicard M, Desille M, Canal F, Dubois-Pot Schneider H, Bergeat D, Turlin B, Bellaud P, Lavergne E, Le Guével R, Corlu A, Perret C, Coulouarn C, Clément B, Musso O (2016) - De novo HAPLN1 expression hallmarks Wnt-induced stem cell and fibrogenic networks leading to aggressive human hepatocellular carcinomas. Oncotarget. 2016 Jun 28;7(26):39026-39043. doi: 10.18632/oncotarget.9346.


Publications 2015

Personnel Plate-Forme :

Aubry M, de Tayrac M, Etcheverry A, Clavreul A, Saikali S, Menei P, Mosser J. (2015) - From the core to beyond the margin: a genomic picture of glioblastoma intratumor heterogeneity. Oncotarget.;6(14):12094-109.

Ben Maamar S, Aquilina L, Quaiser A, Pauwels H, Michon-Coudouel S, Vergnaud-Ayraud V, Labasque T, Roques C, Abbott BW and Dufresne A (2015) - Groundwater Isolation Governs Chemistry and Microbial Community Structure along Hydrologic Flowpaths. Front. Microbiol. 6:1457. doi: 10.3389/fmicb.2015.01457

Lemée JM, Clavreul A, Aubry M, Com E, de Tayrac M, Eliat PA, Henry C, Rousseau A, Mosser J, Menei P. (2015) - Characterizing the peritumoral brain zone in glioblastoma: a multidisciplinary analysis. J Neurooncol. ;122(1):53-61. doi: 10.1007/s11060-014-1695-8.

Rousseau-Gueutin M, Bellot S, Martin G.E, Boutte J, Chelaifa H, Lima O, Michon-Coudouel S, Naquin D, Salmon A, Ainouche K, Ainouche M. (2015) - The chloroplast genome of the hexaploid Spartina maritima (Poaceae, Chloridoideae): Comparative analyses and molecular dating. Molecular Phylogenetics and Evolution

Serra A-A, Couée I, Heijnen D, Michon-Coudouel S, Sulmon C and Gouesbet G (2015) - Genome-Wide Transcriptional Profiling and Metabolic Analysis Uncover Multiple Molecular Responses of the Grass Species Lolium perenne Under Low-Intensity Xenobiotic Stress. Front. Plant Sci. 6:1124. doi: 10.3389/fpls.2015.01124

Savary CC, Jiang X, Aubry M, Jossé R, Kopp-Schneider A, Hewitt P, Guillouzo A. (2015) - Transcriptomic analysis of untreated and drug-treated differentiated HepaRG cells over a 2-week period. (2015) -  Toxicol In Vitro.;30 :27-35. doi: 10.1016/j.tiv.2014.12.019.

de Tayrac M, Roth MP, Jouanolle AM, Coppin H, le Gac G, Piperno A, Férec C, Pelucchi S, Scotet V, Bardou-Jacquet E, Ropert M, Bouvet R, Génin E, Mosser J, Deugnier Y (2015) - Genome-wide association study identifies TF as a significant modifier gene of iron metabolism in HFE hemochromatosis. J Hepatol. 2015 Mar; 62(3):664-72. doi: 10.1016/j.jhep.2014.10.017. PMID: 25457201

Plate-forme citée ou remerciée :

Gely-Pernot A., Hao C., Becker E., Stuparevic I., Kervarrec C., Chalmel F., Primig M., Jégou B. and Smagulova F. (2015) - The epigenetic processes of meiosis in male mice are broadly affected by the widely used herbicide atrazine. BMC Genomics; 16:885. doi 10.1186/s12864-015-2095-y - PDF

Boutte J, Aliaga B, Lima O, Ferreira de Carvalho J, Ainouche A, Macas J, Rousseau-Gueutin M, Coriton O, Ainouche M, Salmon A. (2015) - Haplotype Detection from Next-Generation Sequencing in High-Ploidy-Level Species: 45S rDNA Gene Copies in the Hexaploid Spartina maritima. G3 (Bethesda).;6(1):29-40. doi: 10.1534/g3.115.023242.

Caron G, Hussein M, Kulis M, Delaloy C, Chatonnet F, Pignarre A, Avner S, Lemarié M, Mahé EA, Verdaguer-Dot N, Queirós AC, Tarte K, Martín-Subero JI, Salbert G, Fest T. (2015) - Cell-Cycle-Dependent Reconfiguration of the DNA Methylome during Terminal Differentiation of Human B Cells into Plasma Cells. Cell Rep.;13(5):1059-71. doi: 10.1016/j.celrep.2015.09.051. Epub 2015 Oct 22. PMID: 26565917

Gauthier J-P, Outreman Y, Mieuzet L, Simon J-C (2015) - Bacterial Communities Associated with Host-Adapted Populations of Pea Aphids Revealed by Deep Sequencing of 16S Ribosomal DNA. PLoS ONE 10(3): e0120664. Doi:10.1371/ journal.pone.0120664

Gely-Pernot A, Hao C, Becker E, Stuparevic I, Kervarrec C, Chalmel F, Primig M, Jégou B and Fatima Smagulova F. (2015) - The epigenetic processes of meiosis in male mice are broadly affected by the widely used herbicide atrazine. ; BMC Genomics. DOI: 10.1186/s12864-015-2095-y.

Nunes FL, Aquilina L, de Ridder J, Francez AJ, Quaiser A, Caudal JP, Vandenkoornhuyse P, Dufresne A. (2015) - Time-scales of hydrological forcing on the geochemistry and bacterial community structure of temperate peat soils. Sci. Rep. 5, 14612; doi: 10.1038/srep14612

Quaiser A, Dufresne A, Ballaud F, Roux S, Zivanovic Y, Colombet J, Sime-Ngando T and Francez A-J (2015) - Diversity and comparative genomics of Microviridae in Sphagnum- dominated peatlands. Front. Microbiol. 6:375. doi: 10.3389/fmicb.2015.00375
Sassi M, Augagneur Y, Mauro T, Ivain L, Chabelskaya S, Hallier M, Sallou O, Felden B. (2015) - SRD: a Staphylococcus regulatory RNA database. RNA.;21(5):1005-17. doi: 10.1261/rna.049346.114.

Sassi M, Sharma D, Brinsmade SR, Felden B, Augagneur Y. (2015) - Genome sequence of the clinical isolate Staphylococcus aureus subsp. aureus strain UAMS-1. Genome Announc 3(1):e01584-14. doi:10.1128/genomeA.01584-14.