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Latest publications of CIBIO affiliates (last updated on December 1st, 2017)

Bonfio C, Valer L, Scintilla S, Shah S, Evans DJ, Jin L, Szostak JW, Sasselov DD, Sutherland JD, Mansy SS (2017) UV-light-driven prebiotic synthesis of iron-sulfur clusters. Nat Chem, 9(12):1229-1234, doi:10.1038/nchem.2817.
http://www.ncbi.nlm.nih.gov/pubmed/29168482

Pinto F, Tett A, Armanini F, Asnicar F, Boscaini A, Pasolli E, Zolfo M, Donati C, Salmaso N, Segata N (2017) Draft Genome Sequence of the Planktic Cyanobacterium Tychonema bourrellyi, Isolated from Alpine Lentic Freshwater. Genome Announc, 5(47), doi:10.1128/genomeA.01294-17.
http://www.ncbi.nlm.nih.gov/pubmed/29167244

Grandi A, Tomasi M, Zanella I, Ganfini L, Caproni E, Fantappiè L, Irene C, Frattini L, Isaac SJ, König E, Zerbini F, Tavarini S, Sammicheli C, Giusti F, Ferlenghi I, Parri M, Grandi G (2017) Synergistic Protective Activity of Tumor-Specific Epitopes Engineered in Bacterial Outer Membrane Vesicles. Front Oncol, 7:253, doi:10.3389/fonc.2017.00253.
http://www.ncbi.nlm.nih.gov/pubmed/29164053

Aveic S, Corallo D, Porcù E, Pantile M, Boso D, Zanon C, Viola G, Sidarovich V, Mariotto E, Quattrone A, Basso G, Tonini GP (2017) TP-0903 inhibits neuroblastoma cell growth and enhances the sensitivity to conventional chemotherapy. Eur. J. Pharmacol., 818:435-448, doi:10.1016/j.ejphar.2017.11.016.
http://www.ncbi.nlm.nih.gov/pubmed/29154838

Ghensi P, Bressan E, Gardin C, Ferroni L, Soldini MC, Mandelli F, Soldini C, Zavan B (2017) The Biological Properties of OGI Surfaces Positively Act on Osteogenic and Angiogenic Commitment of Mesenchymal Stem Cells. Materials (Basel), 10(11), doi:10.3390/ma10111321.
http://www.ncbi.nlm.nih.gov/pubmed/29149082

Sladky V, Schuler F, Fava LL, Villunger A (2017) The resurrection of the PIDDosome - emerging roles in the DNA-damage response and centrosome surveillance. J. Cell. Sci., 130(22):3779-3787, doi:10.1242/jcs.203448.
http://www.ncbi.nlm.nih.gov/pubmed/29142064

Belmonte L, Mansy SS (2017) Patterns of Ligands Coordinated to Metallocofactors Extracted from the Protein Data Bank. J Chem Inf Model, doi:10.1021/acs.jcim.7b00468.
http://www.ncbi.nlm.nih.gov/pubmed/29116779

Tang TD, Cecchi D, Fracasso G, Accardi D, Coutable-Pennarun A, Mansy SS, Perriman AW, Anderson JLR, Mann S (2017) Gene-Mediated Chemical Communication in Synthetic Protocell Communities. ACS Synth Biol, doi:10.1021/acssynbio.7b00306.
http://www.ncbi.nlm.nih.gov/pubmed/29091420

Pasolli E, Schiffer L, Manghi P, Renson A, Obenchain V, Truong DT, Beghini F, Malik F, Ramos M, Dowd JB, Huttenhower C, Morgan M, Segata N, Waldron L (2017) Accessible, curated metagenomic data through ExperimentHub. Nat. Methods, 14(11):1023-1024, doi:10.1038/nmeth.4468.
http://www.ncbi.nlm.nih.gov/pubmed/29088129

Dassi E (2017) Handshakes and Fights: The Regulatory Interplay of RNA-Binding Proteins. Front Mol Biosci, 4:67, doi:10.3389/fmolb.2017.00067.
http://www.ncbi.nlm.nih.gov/pubmed/29034245

Tortoli E, Fedrizzi T, Meehan CJ, Trovato A, Grottola A, Giacobazzi E, Serpini GF, Tagliazucchi S, Fabio A, Bettua C, Bertorelli R, Frascaro F, De Sanctis V, Pecorari M, Jousson O, Segata N, Cirillo DM (2017) The new phylogeny of the genus Mycobacterium: The old and the news. Infect. Genet. Evol., 56:19-25, doi:10.1016/j.meegid.2017.10.013.
http://www.ncbi.nlm.nih.gov/pubmed/29030295

Antoniali G, Serra F, Lirussi L, Tanaka M, D'Ambrosio C, Zhang S, Radovic S, Dalla E, Ciani Y, Scaloni A, Li M, Piazza S, Tell G (2017) Mammalian APE1 controls miRNA processing and its interactome is linked to cancer RNA metabolism. Nat Commun, 8(1):797, doi:10.1038/s41467-017-00842-8.
http://www.ncbi.nlm.nih.gov/pubmed/28986522

Stelitano D, Peche LY, Dalla E, Monte M, Piazza S, Schneider C (2017) GTSE1: a novel TEAD4-E2F1 target gene involved in cell protrusions formation in triple-negative breast cancer cell models. Oncotarget, 8(40):67422-67438, doi:10.18632/oncotarget.18691.
http://www.ncbi.nlm.nih.gov/pubmed/28978043

Di Giacomo S, Sollazzo M, de Biase D, Ragazzi M, Bellosta P, Pession A, Grifoni D (2017) Human Cancer Cells Signal Their Competitive Fitness Through MYC Activity. Sci Rep, 7(1):12568, doi:10.1038/s41598-017-13002-1.
http://www.ncbi.nlm.nih.gov/pubmed/28974715

Sulis Sato S, Artoni P, Landi S, Cozzolino O, Parra R, Pracucci E, Trovato F, Szczurkowska J, Luin S, Arosio D, Beltram F, Cancedda L, Kaila K, Ratto GM (2017) Simultaneous two-photon imaging of intracellular chloride concentration and pH in mouse pyramidal neurons in vivo. Proc. Natl. Acad. Sci. U.S.A., 114(41):E8770-E8779, doi:10.1073/pnas.1702861114.
http://www.ncbi.nlm.nih.gov/pubmed/28973889

Puglia M, Landi C, Gagliardi A, Breslin L, Armini A, Brunetti J, Pini A, Bianchi L, Bini L (2018) The proteome speciation of an immortalized cystic fibrosis cell line: New perspectives on the pathophysiology of the disease. J Proteomics, 170:28-42, doi:10.1016/j.jprot.2017.09.013.
http://www.ncbi.nlm.nih.gov/pubmed/28970102

Laulagnier K, Javalet C, Hemming FJ, Chivet M, Lachenal G, Blot B, Chatellard C, Sadoul R (2017) Amyloid precursor protein products concentrate in a subset of exosomes specifically endocytosed by neurons. Cell. Mol. Life Sci., doi:10.1007/s00018-017-2664-0.
http://www.ncbi.nlm.nih.gov/pubmed/28956068

Lal P, Cerofolini L, D'Agostino VG, Zucal C, Fuccio C, Bonomo I, Dassi E, Giuntini S, Di Maio D, Vishwakarma V, Preet R, Williams SN, Fairlamb MS, Munk R, Lehrmann E, Abdelmohsen K, Elezgarai SR, Luchinat C, Novellino E, Quattrone A, Biasini E, Manzoni L, Gorospe M, Dixon DA, Seneci P, Marinelli L, Fragai M, Provenzani A (2017) Regulation of HuR structure and function by dihydrotanshinone-I. Nucleic Acids Res., 45(16):9514-9527, doi:10.1093/nar/gkx623.
http://www.ncbi.nlm.nih.gov/pubmed/28934484

Tripathy D, Vignoli B, Ramesh N, Polanco MJ, Coutelier M, Stephen CD, Canossa M, Monin ML, Aeschlimann P, Turberville S, Aeschlimann D, Schmahmann JD, Hadjivassiliou M, Durr A, Pandey UB, Pennuto M, Basso M (2017) Mutations in TGM6 induce the unfolded protein response in SCA35. Hum. Mol. Genet., 26(19):3749-3762, doi:10.1093/hmg/ddx259.
http://www.ncbi.nlm.nih.gov/pubmed/28934387

Bonfio C, Mansy SS (2017) The Chemical Roots of Iron-Sulfur Dependent Metabolism. Biochemistry, 56(40):5225-5226, doi:10.1021/acs.biochem.7b00842.
http://www.ncbi.nlm.nih.gov/pubmed/28933534

Idilli AI, Precazzini F, Mione MC, Anelli V (2017) Zebrafish in Translational Cancer Research: Insight into Leukemia, Melanoma, Glioma and Endocrine Tumor Biology. Genes (Basel), 8(9), doi:10.3390/genes8090236.
http://www.ncbi.nlm.nih.gov/pubmed/28930163

Resmini G, Rizzo S, Franchin C, Zanin R, Penzo C, Pegoraro S, Ciani Y, Piazza S, Arrigoni G, Sgarra R, Manfioletti G (2017) HMGA1 regulates the Plasminogen activation system in the secretome of breast cancer cells. Sci Rep, 7(1):11768, doi:10.1038/s41598-017-11409-4.
http://www.ncbi.nlm.nih.gov/pubmed/28924209

Andrysik Z, Galbraith MD, Guarnieri AL, Zaccara S, Sullivan KD, Pandey A, MacBeth M, Inga A, Espinosa JM (2017) Identification of a core TP53 transcriptional program with highly distributed tumor suppressive activity. Genome Res., 27(10):1645-1657, doi:10.1101/gr.220533.117.
http://www.ncbi.nlm.nih.gov/pubmed/28904012

Quince C, Walker AW, Simpson JT, Loman NJ, Segata N (2017) Shotgun metagenomics, from sampling to analysis. Nat. Biotechnol., 35(9):833-844, doi:10.1038/nbt.3935.
http://www.ncbi.nlm.nih.gov/pubmed/28898207

Wilkes DC, Sailer V, Xue H, Cheng H, Collins CC, Gleave M, Wang Y, Demichelis F, Beltran H, Rubin MA, Rickman DS (2017) A germline FANCA alteration that is associated with increased sensitivity to DNA damaging agents. Cold Spring Harb Mol Case Stud, 3(5), doi:10.1101/mcs.a001487.
http://www.ncbi.nlm.nih.gov/pubmed/28864460

Marchand JR, Dalle Vedove A, Lolli G, Caflisch A (2017) Discovery of Inhibitors of Four Bromodomains by Fragment-Anchored Ligand Docking. J Chem Inf Model, 57(10):2584-2597, doi:10.1021/acs.jcim.7b00336.
http://www.ncbi.nlm.nih.gov/pubmed/28862840

Wuyts S, Wittouck S, De Boeck I, Allonsius CN, Pasolli E, Segata N, Lebeer S (2016) Large-Scale Phylogenomics of the Lactobacillus casei Group Highlights Taxonomic Inconsistencies and Reveals Novel Clade-Associated Features. mSystems, 2(4), doi:10.1128/mSystems.00061-17.
http://www.ncbi.nlm.nih.gov/pubmed/28845461

Spiliotopoulos D, Wamhoff EC, Lolli G, Rademacher C, Caflisch A (2017) Discovery of BAZ2A bromodomain ligands. Eur J Med Chem, 139:564-572, doi:10.1016/j.ejmech.2017.08.028.
http://www.ncbi.nlm.nih.gov/pubmed/28837921

Beghini F, Pasolli E, Truong TD, Putignani L, Cacciò SM, Segata N (2017) Large-scale comparative metagenomics of Blastocystis, a common member of the human gut microbiome. ISME J, 11(12):2848-2863, doi:10.1038/ismej.2017.139.
http://www.ncbi.nlm.nih.gov/pubmed/28837129

Cardano M, Diaferia GR, Conti L, Baronchelli S, Sessa A, Broccoli V, Barbieri A, De Blasio P, Biunno I (2017) mSEL-1L deficiency affects vasculogenesis and neural stem cell lineage commitment. J. Cell. Physiol., doi:10.1002/jcp.26153.
http://www.ncbi.nlm.nih.gov/pubmed/28816361

De Simone A, Bartolini M, Baschieri A, Apperley KYP, Chen HH, Guardigni M, Montanari S, Kobrlova T, Soukup O, Valgimigli L, Andrisano V, Keillor JW, Basso M, Milelli A (2017) Hydroxy-substituted trans-cinnamoyl derivatives as multifunctional tools in the context of Alzheimer's disease. Eur J Med Chem, 139:378-389, doi:10.1016/j.ejmech.2017.07.058.
http://www.ncbi.nlm.nih.gov/pubmed/28810189

Soltani A, Lebrun S, Carpentier G, Zunino G, Chantepie S, Maïza A, Bozzi Y, Desnos C, Darchen F, Stettler O (2017) Increased signaling by the autism-related Engrailed-2 protein enhances dendritic branching and spine density, alters synaptic structural matching, and exaggerates protein synthesis. PLoS ONE, 12(8):e0181350, doi:10.1371/journal.pone.0181350.
http://www.ncbi.nlm.nih.gov/pubmed/28809922

Hanczyc MM, Monnard PA (2017) Primordial membranes: more than simple container boundaries. Curr Opin Chem Biol, 40:78-86, doi:10.1016/j.cbpa.2017.07.009.
http://www.ncbi.nlm.nih.gov/pubmed/28802999

Gagliardi A, Besio R, Carnemolla C, Landi C, Armini A, Aglan M, Otaify G, Temtamy SA, Forlino A, Bini L, Bianchi L (2017) Cytoskeleton and nuclear lamina affection in recessive osteogenesis imperfecta: A functional proteomics perspective. J Proteomics, 167:46-59, doi:10.1016/j.jprot.2017.08.007.
http://www.ncbi.nlm.nih.gov/pubmed/28802583

Stincardini C, Massignan T, Biggi S, Elezgarai SR, Sangiovanni V, Vanni I, Pancher M, Adami V, Moreno J, Stravalaci M, Maietta G, Gobbi M, Negro A, Requena JR, Castilla J, Nonno R, Biasini E (2017) An antipsychotic drug exerts anti-prion effects by altering the localization of the cellular prion protein. PLoS ONE, 12(8):e0182589, doi:10.1371/journal.pone.0182589.
http://www.ncbi.nlm.nih.gov/pubmed/28787011

Rhoads MK, Hauk P, Terrell J, Tsao CY, Oh H, Raghavan SR, Mansy SS, Payne GF, Bentley WE (2017) Incorporating LsrK AI-2 quorum quenching capability in a functionalized biopolymer capsule. Biotechnol. Bioeng., doi:10.1002/bit.26397.
http://www.ncbi.nlm.nih.gov/pubmed/28782813

Kissling WD, Ahumada JA, Bowser A, Fernandez M, Fernández N, García EA, Guralnick RP, Isaac NJB, Kelling S, Los W, McRae L, Mihoub JB, Obst M, Santamaria M, Skidmore AK, Williams KJ, Agosti D, Amariles D, Arvanitidis C, Bastin L, De Leo F, Egloff W, Elith J, Hobern D, Martin D, Pereira HM, Pesole G, Peterseil J, Saarenmaa H, Schigel D, Schmeller DS, Segata N, Turak E, Uhlir PF, Wee B, Hardisty AR (2017) Building essential biodiversity variables (EBVs) of species distribution and abundance at a global scale. Biol Rev Camb Philos Soc, doi:10.1111/brv.12359.
http://www.ncbi.nlm.nih.gov/pubmed/28766908

Massignan T, Sangiovanni V, Biggi S, Stincardini C, Elezgarai SR, Maietta G, Andreev IA, Ratmanova NK, Belov DS, Lukyanenko ER, Belov GM, Barreca ML, Altieri A, Kurkin AV, Biasini E (2017) A Small-Molecule Inhibitor of Prion Replication and Mutant Prion Protein Toxicity. ChemMedChem, 12(16):1286-1292, doi:10.1002/cmdc.201700302.
http://www.ncbi.nlm.nih.gov/pubmed/28722340

Trautz B, Wiedemann H, Lüchtenborg C, Pierini V, Kranich J, Glass B, Kräusslich HG, Brocker T, Pizzato M, Ruggieri A, Brügger B, Fackler OT (2017) The host-cell restriction factor SERINC5 restricts HIV-1 infectivity without altering the lipid composition and organization of viral particles. J. Biol. Chem., 292(33):13702-13713, doi:10.1074/jbc.M117.797332.
http://www.ncbi.nlm.nih.gov/pubmed/28659343

Sanna MD, Quattrone A, Galeotti N (2017) Silencing of the RNA-binding protein HuR attenuates hyperalgesia and motor disability in experimental autoimmune encephalomyelitis. Neuropharmacology, 123:116-125, doi:10.1016/j.neuropharm.2017.06.005.
http://www.ncbi.nlm.nih.gov/pubmed/28599923

Pistore C, Giannoni E, Colangelo T, Rizzo F, Magnani E, Muccillo L, Giurato G, Mancini M, Rizzo S, Riccardi M, Sahnane N, Del Vescovo V, Kishore K, Mandruzzato M, Macchi F, Pelizzola M, Denti MA, Furlan D, Weisz A, Colantuoni V, Chiarugi P, Bonapace IM (2017) DNA methylation variations are required for epithelial-to-mesenchymal transition induced by cancer-associated fibroblasts in prostate cancer cells. Oncogene, 36(40):5551-5566, doi:10.1038/onc.2017.159.
http://www.ncbi.nlm.nih.gov/pubmed/28581528

Giesert F, Glasl L, Zimprich A, Ernst L, Piccoli G, Stautner C, Zerle J, Hölter SM, Vogt Weisenhorn DM, Wurst W (2017) The pathogenic LRRK2 R1441C mutation induces specific deficits modeling the prodromal phase of Parkinson's disease in the mouse. Neurobiol. Dis., 105:179-193, doi:10.1016/j.nbd.2017.05.013.
http://www.ncbi.nlm.nih.gov/pubmed/28576705

Huang FW, Mosquera JM, Garofalo A, Oh C, Baco M, Amin-Mansour A, Rabasha B, Bahl S, Mullane SA, Robinson BD, Aldubayan S, Khani F, Karir B, Kim E, Chimene-Weiss J, Hofree M, Romanel A, Osborne JR, Kim JW, Azabdaftari G, Woloszynska-Read A, Sfanos K, De Marzo AM, Demichelis F, Gabriel S, Van Allen EM, Mesirov J, Tamayo P, Rubin MA, Powell IJ, Garraway LA (2017) Exome Sequencing of African-American Prostate Cancer Reveals Loss-of-Function ERF Mutations. Cancer Discov, 7(9):973-983, doi:10.1158/2159-8290.CD-16-0960.
http://www.ncbi.nlm.nih.gov/pubmed/28515055

Jiménez Garduño AM, Juárez-Hernández LJ, Polanco MJ, Tosatto L, Michelatti D, Arosio D, Basso M, Pennuto M, Musio C (2017) Altered ionic currents and amelioration by IGF-1 and PACAP in motoneuron-derived cells modelling SBMA. Biophys. Chem., 229:68-76, doi:10.1016/j.bpc.2017.05.003.
http://www.ncbi.nlm.nih.gov/pubmed/28511915

Roncador A, Jimenez-Garduño AM, Pasquardini L, Giusti G, Cornella N, Lunelli L, Potrich C, Bartali R, Aversa L, Verucchi R, Serra MD, Caponi S, Iannotta S, Macchi P, Musio C (2017) Primary cortical neurons on PMCS TiO2 films towards bio-hybrid memristive device: A morpho-functional study. Biophys. Chem., 229:115-122, doi:10.1016/j.bpc.2017.04.010.
http://www.ncbi.nlm.nih.gov/pubmed/28476206

Romanel A, Zhang T, Elemento O, Demichelis F (2017) EthSEQ: ethnicity annotation from whole exome sequencing data. Bioinformatics, 33(15):2402-2404, doi:10.1093/bioinformatics/btx165.
http://www.ncbi.nlm.nih.gov/pubmed/28369222

Zeng Y, Navarro P, Shirali M, Howard DM, Adams MJ, Hall LS, Clarke TK, Thomson PA, Smith BH, Murray A, Padmanabhan S, Hayward C, Boutin T, MacIntyre DJ, Lewis CM, Wray NR, Mehta D, Penninx BWJH, Milaneschi Y, Baune BT, Air T, Hottenga JJ, Mbarek H, Castelao E, Pistis G, Schulze TG, Streit F, Forstner AJ, Byrne EM, Martin NG, Breen G, Müller-Myhsok B, Lucae S, Kloiber S, Domenici E, Major Depressive Disorder Working Group of the Psychiatric Genomics Consortium, Deary IJ, Porteous DJ, Haley CS, McIntosh AM (2017) Genome-wide Regional Heritability Mapping Identifies a Locus Within the TOX2 Gene Associated With Major Depressive Disorder. Biol. Psychiatry, 82(5):312-321, doi:10.1016/j.biopsych.2016.12.012.
http://www.ncbi.nlm.nih.gov/pubmed/28153336

Moncini S, Lunghi M, Valmadre A, Grasso M, Del Vescovo V, Riva P, Denti MA, Venturin M (2017) The miR-15/107 Family of microRNA Genes Regulates CDK5R1/p35 with Implications for Alzheimer's Disease Pathogenesis. Mol. Neurobiol., 54(6):4329-4342, doi:10.1007/s12035-016-0002-4.
http://www.ncbi.nlm.nih.gov/pubmed/27343180