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Items: 20

1.

No metagenomic evidence of tumorigenic viruses in cancers from a selected cohort of immunosuppressed subjects.

Passaro N, Casagrande A, Chiara M, Fosso B, Manzari C, D'Erchia AM, Iesari S, Pisani F, Famulari A, Tulissi P, Mastrosimone S, Maresca MC, Mercante G, Spriano G, Corrado G, Vizza E, Garbuglia AR, Capobianchi MR, Mottini C, Cenci A, Tartaglia M, Costa AN, Pesole G, Crescenzi M.

Sci Rep. 2019 Dec 24;9(1):19815. doi: 10.1038/s41598-019-56240-1.

2.

Human Endometrial Microbiota at Term of Normal Pregnancies.

Leoni C, Ceci O, Manzari C, Fosso B, Volpicella M, Ferrari A, Fiorella P, Pesole G, Cicinelli E, Ceci LR.

Genes (Basel). 2019 Nov 26;10(12). pii: E971. doi: 10.3390/genes10120971.

3.

Jellyfish summer outbreaks as bacterial vectors and potential hazards for marine animals and humans health? The case of Rhizostoma pulmo (Scyphozoa, Cnidaria).

Basso L, Rizzo L, Marzano M, Intranuovo M, Fosso B, Pesole G, Piraino S, Stabili L.

Sci Total Environ. 2019 Nov 20;692:305-318. doi: 10.1016/j.scitotenv.2019.07.155. Epub 2019 Jul 19.

PMID:
31349170
4.

Enrichment of intestinal Lactobacillus by enhanced secretory IgA coating alters glucose homeostasis in P2rx7-/- mice.

Perruzza L, Strati F, Gargari G, D'Erchia AM, Fosso B, Pesole G, Guglielmetti S, Grassi F.

Sci Rep. 2019 Jun 27;9(1):9315. doi: 10.1038/s41598-019-45724-9.

5.

Dynamic inosinome profiles reveal novel patient stratification and gender-specific differences in glioblastoma.

Silvestris DA, Picardi E, Cesarini V, Fosso B, Mangraviti N, Massimi L, Martini M, Pesole G, Locatelli F, Gallo A.

Genome Biol. 2019 Feb 13;20(1):33. doi: 10.1186/s13059-019-1647-x.

6.

Microbiota composition, gene pool and its expression in Gir cattle (Bos indicus) rumen under different forage diets using metagenomic and metatranscriptomic approaches.

Pandit RJ, Hinsu AT, Patel SH, Jakhesara SJ, Koringa PG, Bruno F, Psifidi A, Shah SV, Joshi CG.

Syst Appl Microbiol. 2018 Jul;41(4):374-385. doi: 10.1016/j.syapm.2018.02.002. Epub 2018 Mar 9.

PMID:
29555111
7.

Whole transcriptome profiling of Late-Onset Alzheimer's Disease patients provides insights into the molecular changes involved in the disease.

Annese A, Manzari C, Lionetti C, Picardi E, Horner DS, Chiara M, Caratozzolo MF, Tullo A, Fosso B, Pesole G, D'Erchia AM.

Sci Rep. 2018 Mar 9;8(1):4282. doi: 10.1038/s41598-018-22701-2.

8.

ITSoneDB: a comprehensive collection of eukaryotic ribosomal RNA Internal Transcribed Spacer 1 (ITS1) sequences.

Santamaria M, Fosso B, Licciulli F, Balech B, Larini I, Grillo G, De Caro G, Liuni S, Pesole G.

Nucleic Acids Res. 2018 Jan 4;46(D1):D127-D132. doi: 10.1093/nar/gkx855.

9.

Unbiased Taxonomic Annotation of Metagenomic Samples.

Fosso B, Pesole G, Rosselló F, Valiente G.

J Comput Biol. 2018 Mar;25(3):348-360. doi: 10.1089/cmb.2017.0144. Epub 2017 Oct 13.

10.

The metagenomic data life-cycle: standards and best practices.

Ten Hoopen P, Finn RD, Bongo LA, Corre E, Fosso B, Meyer F, Mitchell A, Pelletier E, Pesole G, Santamaria M, Willassen NP, Cochrane G.

Gigascience. 2017 Aug 1;6(8):1-11. doi: 10.1093/gigascience/gix047.

11.

T Follicular Helper Cells Promote a Beneficial Gut Ecosystem for Host Metabolic Homeostasis by Sensing Microbiota-Derived Extracellular ATP.

Perruzza L, Gargari G, Proietti M, Fosso B, D'Erchia AM, Faliti CE, Rezzonico-Jost T, Scribano D, Mauri L, Colombo D, Pellegrini G, Moregola A, Mooser C, Pesole G, Nicoletti M, Norata GD, Geuking MB, McCoy KD, Guglielmetti S, Grassi F.

Cell Rep. 2017 Mar 14;18(11):2566-2575. doi: 10.1016/j.celrep.2017.02.061.

12.

BioVeL: a virtual laboratory for data analysis and modelling in biodiversity science and ecology.

Hardisty AR, Bacall F, Beard N, Balcázar-Vargas MP, Balech B, Barcza Z, Bourlat SJ, De Giovanni R, de Jong Y, De Leo F, Dobor L, Donvito G, Fellows D, Guerra AF, Ferreira N, Fetyukova Y, Fosso B, Giddy J, Goble C, Güntsch A, Haines R, Ernst VH, Hettling H, Hidy D, Horváth F, Ittzés D, Ittzés P, Jones A, Kottmann R, Kulawik R, Leidenberger S, Lyytikäinen-Saarenmaa P, Mathew C, Morrison N, Nenadic A, de la Hidalga AN, Obst M, Oostermeijer G, Paymal E, Pesole G, Pinto S, Poigné A, Fernandez FQ, Santamaria M, Saarenmaa H, Sipos G, Sylla KH, Tähtinen M, Vicario S, Vos RA, Williams AR, Yilmaz P.

BMC Ecol. 2016 Oct 20;16(1):49.

13.

Complexity and Dynamics of the Winemaking Bacterial Communities in Berries, Musts, and Wines from Apulian Grape Cultivars through Time and Space.

Marzano M, Fosso B, Manzari C, Grieco F, Intranuovo M, Cozzi G, Mulè G, Scioscia G, Valiente G, Tullo A, Sbisà E, Pesole G, Santamaria M.

PLoS One. 2016 Jun 14;11(6):e0157383. doi: 10.1371/journal.pone.0157383. eCollection 2016.

14.

Intestinal microbiota sustains inflammation and autoimmunity induced by hypomorphic RAG defects.

Rigoni R, Fontana E, Guglielmetti S, Fosso B, D'Erchia AM, Maina V, Taverniti V, Castiello MC, Mantero S, Pacchiana G, Musio S, Pedotti R, Selmi C, Mora JR, Pesole G, Vezzoni P, Poliani PL, Grassi F, Villa A, Cassani B.

J Exp Med. 2016 Mar 7;213(3):355-75. doi: 10.1084/jem.20151116. Epub 2016 Feb 29.

15.

BALB/c and C57BL/6 Mice Differ in Polyreactive IgA Abundance, which Impacts the Generation of Antigen-Specific IgA and Microbiota Diversity.

Fransen F, Zagato E, Mazzini E, Fosso B, Manzari C, El Aidy S, Chiavelli A, D'Erchia AM, Sethi MK, Pabst O, Marzano M, Moretti S, Romani L, Penna G, Pesole G, Rescigno M.

Immunity. 2015 Sep 15;43(3):527-40. doi: 10.1016/j.immuni.2015.08.011. Epub 2015 Sep 8.

16.

Functional Integration of mRNA Translational Control Programs.

MacNicol MC, Cragle CE, Arumugam K, Fosso B, Pesole G, MacNicol AM.

Biomolecules. 2015 Jul 21;5(3):1580-99. doi: 10.3390/biom5031580. Review.

17.

BioMaS: a modular pipeline for Bioinformatic analysis of Metagenomic AmpliconS.

Fosso B, Santamaria M, Marzano M, Alonso-Alemany D, Valiente G, Donvito G, Monaco A, Notarangelo P, Pesole G.

BMC Bioinformatics. 2015 Jul 1;16:203. doi: 10.1186/s12859-015-0595-z.

18.

e-DNA meta-barcoding: from NGS raw data to taxonomic profiling.

Bruno F, Marinella M, Santamaria M.

Methods Mol Biol. 2015;1269:257-78. doi: 10.1007/978-1-4939-2291-8_16.

PMID:
25577384
19.

Lactobacillus rossiae, a vitamin B12 producer, represents a metabolically versatile species within the Genus Lactobacillus.

De Angelis M, Bottacini F, Fosso B, Kelleher P, Calasso M, Di Cagno R, Ventura M, Picardi E, van Sinderen D, Gobbetti M.

PLoS One. 2014 Sep 29;9(9):e107232. doi: 10.1371/journal.pone.0107232. eCollection 2014.

20.

Reference databases for taxonomic assignment in metagenomics.

Santamaria M, Fosso B, Consiglio A, De Caro G, Grillo G, Licciulli F, Liuni S, Marzano M, Alonso-Alemany D, Valiente G, Pesole G.

Brief Bioinform. 2012 Nov;13(6):682-95. doi: 10.1093/bib/bbs036. Epub 2012 Jul 10. Review.

PMID:
22786784

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