Latest publications of CIBIO affiliates (last updated on June 1st, 2020)

Herviou P, Le Bras M, Dumas L, Hieblot C, Gilhodes J, Cioci G, Hugnot JP, Ameadan A, Guillonneau F, Dassi E, Cammas A, Millevoi S (2020) hnRNP H/F drive RNA G-quadruplex-mediated translation linked to genomic instability and therapy resistance in glioblastoma. Nat Commun, 11(1):2661, doi:10.1038/s41467-020-16168-x.

Albadri S, Armant O, Aljand-Geschwill T, Del Bene F, Carl M, Strähle U, Poggi L (2020) Expression of a Barhl1a reporter in subsets of retinal ganglion cells and commissural neurons of the developing zebrafish brain. Sci Rep, 10(1):8814, doi:10.1038/s41598-020-65435-w.

Pasolli E, De Filippis F, Mauriello IE, Cumbo F, Walsh AM, Leech J, Cotter PD, Segata N, Ercolini D (2020) Large-scale genome-wide analysis links lactic acid bacteria from food with the gut microbiome. Nat Commun, 11(1):2610, doi:10.1038/s41467-020-16438-8.

Asnicar F, Thomas AM, Beghini F, Mengoni C, Manara S, Manghi P, Zhu Q, Bolzan M, Cumbo F, May U, Sanders JG, Zolfo M, Kopylova E, Pasolli E, Knight R, Mirarab S, Huttenhower C, Segata N (2020) Precise phylogenetic analysis of microbial isolates and genomes from metagenomes using PhyloPhlAn 3.0. Nat Commun, 11(1):2500, doi:10.1038/s41467-020-16366-7.

Carrot-Zhang J, Chambwe N, Damrauer JS, Knijnenburg TA, Robertson AG, Yau C, Zhou W, Berger AC, Huang KL, Newberg JY, Mashl RJ, Romanel A, Sayaman RW, Demichelis F, Felau I, Frampton GM, Han S, Hoadley KA, Kemal A, Laird PW, Lazar AJ, Le X, Oak N, Shen H, Wong CK, Zenklusen JC, Ziv E, Cancer Genome Atlas Analysis Network, Cherniack AD, Beroukhim R (2020) Comprehensive Analysis of Genetic Ancestry and Its Molecular Correlates in Cancer. Cancer Cell, 37(5):639-654.e6, doi:10.1016/j.ccell.2020.04.012.

Tigani W, Rossi MP, Artimagnella O, Santo M, Rauti R, Sorbo T, Ulloa FPS, Provenzano G, Allegra M, Caleo M, Ballerini L, Bozzi Y, Mallamaci A (2020) Foxg1 Upregulation Enhances Neocortical Activity. Cereb. Cortex, doi:10.1093/cercor/bhaa107.

Derosa L, Routy B, Fidelle M, Iebba V, Alla L, Pasolli E, Segata N, Desnoyer A, Pietrantonio F, Ferrere G, Fahrner JE, Le Chatellier E, Pons N, Galleron N, Roume H, Duong CPM, Mondragón L, Iribarren K, Bonvalet M, Terrisse S, Rauber C, Goubet AG, Daillère R, Lemaitre F, Reni A, Casu B, Alou MT, Alves Costa Silva C, Raoult D, Fizazi K, Escudier B, Kroemer G, Albiges L, Zitvogel L (2020) Gut Bacteria Composition Drives Primary Resistance to Cancer Immunotherapy in Renal Cell Carcinoma Patients. Eur. Urol., doi:10.1016/j.eururo.2020.04.044.

Cussotto S, Delgado I, Anesi A, Dexpert S, Aubert A, Beau C, Forestier D, Ledaguenel P, Magne E, Mattivi F, Capuron L (2020) Tryptophan Metabolic Pathways Are Altered in Obesity and Are Associated With Systemic Inflammation. Front Immunol, 11:557, doi:10.3389/fimmu.2020.00557.

Zhou X, Ulaszewska MM, Cuparencu C, De Gobba C, Vázquez-Manjarrez N, Gürdeniz G, Chen J, Mattivi F, Dragsted LO (2020) Urine Metabolome Profiling Reveals Imprints of Food Heating Processes after Dietary Intervention with Differently Cooked Potatoes. J. Agric. Food Chem., doi:10.1021/acs.jafc.0c01136.

Liu D, Shoag JE, Poliak D, Goueli RS, Ravikumar V, Redmond D, Vosoughi A, Fontugne J, Pan H, Lee D, Thomas D, Salari K, Wang Z, Romanel A, Te A, Lee R, Chughtai B, Olumi AF, Mosquera JM, Demichelis F, Elemento O, Rubin MA, Sboner A, Barbieri CE (2020) Integrative multiplatform molecular profiling of benign prostatic hyperplasia identifies distinct subtypes. Nat Commun, 11(1):1987, doi:10.1038/s41467-020-15913-6.

Idilli AI, Pagani F, Kerschbamer E, Berardinelli F, Bernabé M, Cayuela ML, Piazza S, Poliani PL, Cusanelli E, Mione MC (2020) Changes in the Expression of Pre-Replicative Complex Genes in hTERT and ALT Pediatric Brain Tumors. Cancers (Basel), 12(4), doi:10.3390/cancers12041028.

Manni G, Lewis V, Senesi M, Spagnolli G, Fallarino F, Collins SJ, Mouillet-Richard S, Biasini E (2020) The cellular prion protein beyond prion diseases. Swiss Med Wkly, 150:w20222, doi:10.4414/smw.2020.20222.

Mullish BH, Michael DR, McDonald JA, Masetti G, Plummer SF, Marchesi JR (2020) Identifying the factors influencing outcome in probiotic studies in overweight and obese patients: host or microbiome? Gut, doi:10.1136/gutjnl-2020-321110.

Palomo-Irigoyen M, Pérez-Andrés E, Iruarrizaga-Lejarreta M, Barreira Manrique A, Tamayo-Caro M, Vila-Vecilla L, Moreno-Cugnon L, Beitia Telletxea N, Medrano D, Fernández-Ramos D, Lozano JJ, Okawa S, Lavín JL, Martin-Martin N, Sutherland JD, Gutiérrez-de Juan V, Gonzalez-Lopez M, Macias-Camara N, Mosén-Ansorena D, Laraba L, Hanemann CO, Ercolano E, Parkinson DB, Schultz CW, Araúzo-Bravo MJ, Ascensión AM, Gerovska D, Iribar H, Izeta A, Pytel P, Krastel P, Provenzani A, Seneci P, Carrasco RD, Del Sol A, Martinez Chantar ML, Barrio R, Serra E, Lázaro C, Flanagan AM, Gorospe M, Ratner N, Carracedo A, Aransay AM, Varela-Rey M, Woodhoo A (2020) HuR/ELAVL1 drives malignant peripheral nerve sheath tumour growth and metastasis. J. Clin. Invest., doi:10.1172/JCI130379.

Corbellari R, Nadal L, Villa A, Neri D, De Luca R (2020) The immunocytokine L19-TNF eradicates sarcomas in combination with chemotherapy agents or with immune check-point inhibitors. Anticancer Drugs, doi:10.1097/CAD.0000000000000938.

Filosi M, Kam-Thong T, Essioux L, Muglia P, Trabetti E, Spooren W, Müller-Myshok B, Italian Autism Network, Domenici E (2020) Transcriptome signatures from discordant sibling pairs reveal changes in peripheral blood immune cell composition in Autism Spectrum Disorder. Transl Psychiatry, 10(1):106, doi:10.1038/s41398-020-0778-x.

Dalle Vedove A, Zonta F, Zanforlin E, Demitri N, Ribaudo G, Cazzanelli G, Ongaro A, Sarno S, Zagotto G, Battistutta R, Ruzzene M, Lolli G (2020) A novel class of selective CK2 inhibitors targeting its open hinge conformation. Eur J Med Chem, 195:112267, doi:10.1016/j.ejmech.2020.112267.

Hanczyc MM (2020) Engineering Life: A Review of Synthetic Biology. Artif. Life, doi:10.1162/artl_a_00318.

Arapitsas P, Ugliano M, Marangon M, Piombino P, Rolle L, Gerbi V, Versari A, Mattivi F (2020) Use of Untargeted Liquid Chromatography-Mass Spectrometry Metabolome To Discriminate Italian Monovarietal Red Wines, Produced in Their Different Terroirs. J. Agric. Food Chem., doi:10.1021/acs.jafc.0c00879.

McKenna S, Malito E, Rouse SL, Abate F, Bensi G, Chiarot E, Micoli F, Mancini F, Gomes Moriel D, Grandi G, Mossakowska D, Pearson M, Xu Y, Pease J, Sriskandan S, Margarit I, Bottomley MJ, Matthews S (2020) Structure, dynamics and immunogenicity of a catalytically inactive C Comput Struct Biotechnol J, 18:650-660, doi:10.1016/j.csbj.2020.03.004.

Swann JR, Rajilic-Stojanovic M, Salonen A, Sakwinska O, Gill C, Meynier A, Fança-Berthon P, Schelkle B, Segata N, Shortt C, Tuohy K, Hasselwander O (2020) Considerations for the design and conduct of human gut microbiota intervention studies relating to foods. Eur J Nutr, doi:10.1007/s00394-020-02232-1.

Provenzano G, Gilardoni A, Maggia M, Pernigo M, Sgadò P, Casarosa S, Bozzi Y (2020) Altered Expression of GABAergic Markers in the Forebrain of Young and Adult  Genes (Basel), 11(4), doi:10.3390/genes11040384.

Rizzotto D, Zaccara S, Rossi A, Galbraith MD, Andrysik Z, Pandey A, Sullivan KD, Quattrone A, Espinosa JM, Dassi E, Inga A (2020) Nutlin-Induced Apoptosis Is Specified by a Translation Program Regulated by PCBP2 and DHX30. Cell Rep, 30(13):4355-4369.e6, doi:10.1016/j.celrep.2020.03.011.

Collado MC, Segata N (2020) Initial exploration of in utero microbial colonization. Nat. Med., 26(4):469-470, doi:10.1038/s41591-020-0836-1.

Tripathy D, Migazzi A, Costa F, Roncador A, Gatto P, Fusco F, Boeri L, Albani D, Juárez-Hernández JL, Musio C, Colombo L, Salmona M, Wilhelmus MMM, Drukarch B, Pennuto M, Basso M (2020) Increased transcription of transglutaminase 1 mediates neuronal death in in vitro models of neuronal stress and Aβ1-42-mediated toxicity. Neurobiol. Dis., 140:104849, doi:10.1016/j.nbd.2020.104849.

Holler S, Hanczyc MM (2020) Autoselective transport of mammalian cells with a chemotactic droplet. Sci Rep, 10(1):5525, doi:10.1038/s41598-020-62325-z.

Cristofaro I, Alessandrini F, Spinello Z, Guerriero C, Fiore M, Caffarelli E, Laneve P, Dini L, Conti L, Tata AM (2020) Cross Interaction between M2 Muscarinic Receptor and Notch1/EGFR Pathway in Human Glioblastoma Cancer Stem Cells: Effects on Cell Cycle Progression and Survival. Cells, 9(3), doi:10.3390/cells9030657.

Guglielmi L, Bühler A, Moro E, Argenton F, Poggi L, Carl M (2020) Temporal control of Wnt signaling is required for habenular neuron diversity and brain asymmetry. Development, 147(6), doi:10.1242/dev.182865.

Petrini S, Foladori P, Beghini F, Armanini F, Segata N, Andreottola G (2020) How inoculation affects the development and the performances of microalgal-bacterial consortia treating real municipal wastewater. J. Environ. Manage., 263:110427, doi:10.1016/j.jenvman.2020.110427.

Berti A, Felicetti M, Monti S, Ortolan A, Padoan R, Brunori G, Bortolotti R, Caporali R, Montecucco C, Schiavon F, Paolazzi G (2020) Disease and treatment-related morbidity in young and elderly patients with granulomatosis with polyangiitis and microscopic polyangiitis. Semin. Arthritis Rheum., doi:10.1016/j.semarthrit.2020.02.008.

Maines E, Urru SAM, Burri E, Piccoli G, Pedrolli A, Pasqualini A, Burlina AL, Temporin G (2020) Formulation and Clinical Evaluation of Sodium Benzoate Oral Solution for the Treatment of Urea Cycle Disorders in Pediatric Patients. AAPS PharmSciTech, 21(3):100, doi:10.1208/s12249-020-01642-y.

Wu A, Cremaschi P, Wetterskog D, Conteduca V, Franceschini GM, Kleftogiannis D, Jayaram A, Sandhu S, Wong SQ, Benelli M, Salvi S, Gurioli G, Feber A, Pereira MB, Wingate AM, Gonzalez-Billalebeitia E, De Giorgi U, Demichelis F, Lise S, Attard G (2020) Genome-wide plasma DNA methylation features of metastatic prostate cancer. J. Clin. Invest., 130(4):1991-2000, doi:10.1172/JCI130887.

Chiacchiera F, Morey L, Mozzetta C (2020) Editorial: Epigenetic Regulation of Stem Cell Plasticity in Tissue Regeneration and Disease. Front Cell Dev Biol, 8:82, doi:10.3389/fcell.2020.00082.

Cristofaro I, Limongi C, Piscopo P, Crestini A, Guerriero C, Fiore M, Conti L, Confaloni A, Tata AM (2020) M2 Receptor Activation Counteracts the Glioblastoma Cancer Stem Cell Response to Hypoxia Condition. Int J Mol Sci, 21(5), doi:10.3390/ijms21051700.

Qin N, Liang P, Wu C, Wang G, Xu Q, Xiong X, Wang T, Zolfo M, Segata N, Qin H, Knight R, Gilbert JA, Zhu TF (2020) Longitudinal survey of microbiome associated with particulate matter in a megacity. Genome Biol., 21(1):55, doi:10.1186/s13059-020-01964-x.

Marku A, Carrion MDP, Pischedda F, Marte A, Casiraghi Z, Marciani P, von Zweydorf F, Gloeckner CJ, Onofri F, Perego C, Piccoli G (2020) The LRRK2 N-terminal domain influences vesicle trafficking: impact of the E193K variant. Sci Rep, 10(1):3799, doi:10.1038/s41598-020-60834-5.

Idilli AI, Cusanelli E, Pagani F, Berardinelli F, Bernabé M, Cayuela ML, Poliani PL, Mione MC (2020) Expression of  Front Cell Dev Biol, 8:65, doi:10.3389/fcell.2020.00065.

Preiner M, Asche S, Becker S, Betts HC, Boniface A, Camprubi E, Chandru K, Erastova V, Garg SG, Khawaja N, Kostyrka G, Machné R, Moggioli G, Muchowska KB, Neukirchen S, Peter B, Pichlhöfer E, Radványi Á, Rossetto D, Salditt A, Schmelling NM, Sousa FL, Tria FDK, Vörös D, Xavier JC (2020) The Future of Origin of Life Research: Bridging Decades-Old Divisions. Life (Basel), 10(3), doi:10.3390/life10030020.

Avitabile M, Lasorsa VA, Cantalupo S, Cardinale A, Cimmino F, Montella A, Capasso D, Haupt R, Amoroso L, Garaventa A, Quattrone A, Corrias MV, Iolascon A, Capasso M (2020) Association of PARP1 polymorphisms with response to chemotherapy in patients with high-risk neuroblastoma. J. Cell. Mol. Med., 24(7):4072-4081, doi:10.1111/jcmm.15058.

Weber L, Frati G, Felix T, Hardouin G, Casini A, Wollenschlaeger C, Meneghini V, Masson C, De Cian A, Chalumeau A, Mavilio F, Amendola M, Andre-Schmutz I, Cereseto A, El Nemer W, Concordet JP, Giovannangeli C, Cavazzana M, Miccio A (2020) Editing a γ-globin repressor binding site restores fetal hemoglobin synthesis and corrects the sickle cell disease phenotype. Sci Adv, 6(7):eaay9392, doi:10.1126/sciadv.aay9392.

Beltran H, Romanel A, Conteduca V, Casiraghi N, Sigouros M, Franceschini GM, Orlando F, Fedrizzi T, Ku SY, Dann E, Alonso A, Mosquera JM, Sboner A, Xiang J, Elemento O, Nanus DM, Tagawa ST, Benelli M, Demichelis F (2020) Circulating tumor DNA profile recognizes transformation to castration-resistant neuroendocrine prostate cancer. J. Clin. Invest., 130(4):1653-1668, doi:10.1172/JCI131041.

Corradi E, Dalla Costa I, Gavoci A, Iyer A, Roccuzzo M, Otto TA, Oliani E, Bridi S, Strohbuecker S, Santos-Rodriguez G, Valdembri D, Serini G, Abreu-Goodger C, Baudet ML (2020) Axonal precursor miRNAs hitchhike on endosomes and locally regulate the development of neural circuits. EMBO J., 39(6):e102513, doi:10.15252/embj.2019102513.

Tarallo S, Ferrero G, Gallo G, Francavilla A, Clerico G, Realis Luc A, Manghi P, Thomas AM, Vineis P, Segata N, Pardini B, Naccarati A, Cordero F (2020) Correction for Tarallo et al., "Altered Fecal Small RNA Profiles in Colorectal Cancer Reflect Gut Microbiome Composition in Stool Samples". mSystems, 5(1), doi:10.1128/mSystems.00072-20.

Chierici M, Francescatto M, Bussola N, Jurman G, Furlanello C (2020) Predictability of drug-induced liver injury by machine learning. Biol. Direct, 15(1):3, doi:10.1186/s13062-020-0259-4.

Michaelsen TY, Brandt J, Singleton CM, Kirkegaard RH, Wiesinger J, Segata N, Albertsen M (2020) The Signal and the Noise: Characteristics of Antisense RNA in Complex Microbial Communities. mSystems, 5(1), doi:10.1128/mSystems.00587-19.

Zagato E, Pozzi C, Bertocchi A, Schioppa T, Saccheri F, Guglietta S, Fosso B, Melocchi L, Nizzoli G, Troisi J, Marzano M, Oresta B, Spadoni I, Atarashi K, Carloni S, Arioli S, Fornasa G, Asnicar F, Segata N, Guglielmetti S, Honda K, Pesole G, Vermi W, Penna G, Rescigno M (2020) Endogenous murine microbiota member Faecalibaculum rodentium and its human homologue protect from intestinal tumour growth. Nat Microbiol, 5(3):511-524, doi:10.1038/s41564-019-0649-5.

Sladky VC, Knapp K, Soratroi C, Heppke J, Eichin F, Rocamora-Reverte L, Szabo TG, Bongiovanni L, Westendorp B, Moreno E, van Liere EA, Bakker B, Spierings DCJ, Wardenaar R, Pereyra D, Starlinger P, Schultze S, Trauner M, Stojakovic T, Scharnagl H, Fava LL, Foijer F, de Bruin A, Villunger A (2020) E2F-Family Members Engage the PIDDosome to Limit Hepatocyte Ploidy in Liver Development and Regeneration. Dev. Cell, 52(3):335-349.e7, doi:10.1016/j.devcel.2019.12.016.

Berti A, Cornec D, Casal Moura M, Smyth RJ, Dagna L, Specks U, Keogh KA (2020) Eosinophilic Granulomatosis With Polyangiitis: Clinical Predictors of Long-term Asthma Severity. Chest, 157(5):1086-1099, doi:10.1016/j.chest.2019.11.045.

Casiraghi N, Orlando F, Ciani Y, Xiang J, Sboner A, Elemento O, Attard G, Beltran H, Demichelis F, Romanel A (2020) ABEMUS: platform-specific and data-informed detection of somatic SNVs in cfDNA. Bioinformatics, 36(9):2665-2674, doi:10.1093/bioinformatics/btaa016.

Karali M, Guadagnino I, Marrocco E, De Cegli R, Carissimo A, Pizzo M, Casarosa S, Conte I, Surace EM, Banfi S (2020) AAV-miR-204 Protects from Retinal Degeneration by Attenuation of Microglia Activation and Photoreceptor Cell Death. Mol Ther Nucleic Acids, 19:144-156, doi:10.1016/j.omtn.2019.11.005.

Corallo D, Donadon M, Pantile M, Sidarovich V, Cocchi S, Ori M, De Sarlo M, Candiani S, Frasson C, Distel M, Quattrone A, Zanon C, Basso G, Tonini GP, Aveic S (2020) Correction to: LIN28B increases neural crest cell migration and leads to transformation of trunk sympathoadrenal precursors. Cell Death Differ., 27(4):1449, doi:10.1038/s41418-019-0451-1.

Cottini M, Licini A, Lombardi C, Berti A (2020) Clinical Characterization and Predictors of IOS-Defined Small-Airway Dysfunction in Asthma. J Allergy Clin Immunol Pract, 8(3):997-1004.e2, doi:10.1016/j.jaip.2019.10.040.

Mercatelli D, Scalambra L, Triboli L, Ray F, Giorgi FM (2020) Gene regulatory network inference resources: A practical overview. Biochim Biophys Acta Gene Regul Mech, 1863(6):194430, doi:10.1016/j.bbagrm.2019.194430.

Cozza G, Zonta F, Dalle Vedove A, Venerando A, Dall'Acqua S, Battistutta R, Ruzzene M, Lolli G (2020) Biochemical and cellular mechanism of protein kinase CK2 inhibition by deceptive curcumin. FEBS J., 287(9):1850-1864, doi:10.1111/febs.15111.

Corallo D, Donadon M, Pantile M, Sidarovich V, Cocchi S, Ori M, De Sarlo M, Candiani S, Frasson C, Distel M, Quattrone A, Zanon C, Basso G, Tonini GP, Aveic S (2020) LIN28B increases neural crest cell migration and leads to transformation of trunk sympathoadrenal precursors. Cell Death Differ., 27(4):1225-1242, doi:10.1038/s41418-019-0425-3.

Agnusdei V, Minuzzo S, Pinazza M, Gasparini A, Pezzè L, Amaro AA, Pasqualini L, Bianco PD, Tognon M, Frasson C, Palumbo P, Ciribilli Y, Pfeffer U, Carella M, Amadori A, Indraccolo S (2020) Dissecting molecular mechanisms of resistance to NOTCH1-targeted therapy in T-cell acute lymphoblastic leukemia xenografts. Haematologica, 105(5):1317-1328, doi:10.3324/haematol.2019.217687.

Meschini S, Pellegrini E, Maestri CA, Condello M, Bettotti P, Condello G, Scarpa M (2020) In vitro toxicity assessment of hydrogel patches obtained by cation-induced cross-linking of rod-like cellulose nanocrystals. J. Biomed. Mater. Res. Part B Appl. Biomater., 108(3):687-697, doi:10.1002/jbm.b.34423.