C. Donati

发表

Reverse vaccinology in the 21st century: improvements over the original design

C. Donati, R. Rappuoli, 2013, Annals of the New York Academy of Sciences.

H. Tettelin, C. Donati, R. Rappuoli, 2005, Current opinion in genetics & development.

Structure and dynamics of the pan-genome of Streptococcus pneumoniae and closely related species

David R. Riley, Samuel V. Angiuoli, H. Tettelin, 2010, Genome Biology.

The Gut Microbiota Communities of Wild Arboreal and Ground-Feeding Tropical Primates Are Affected Differently by Habitat Disturbance

Abigail E. Asangba, F. Rovero, C. Donati, 2020, mSystems.

Genome analysis of multiple pathogenic isolates of Streptococcus agalactiae: implications for the microbial "pan-genome".

Jaideep P. Sundaram, Christopher R. Hauser, Samuel V. Angiuoli, 2005, Proceedings of the National Academy of Sciences of the United States of America.

MetaMLST: multi-locus strain-level bacterial typing from metagenomic samples

Claudio Donati, Nicola Segata, N. Segata, 2016, Nucleic acids research.

Strain profiling and epidemiology of bacterial species from metagenomic sequencing

Davide Albanese, Claudio Donati, C. Donati, 2017, Nature Communications.

Microbiology in the post-genomic era

Julian Parkhill, Claudio Donati, David A. Relman, 2008, Nature Reviews Microbiology.

The Pangenome: A Data-Driven Discovery in Biology

H. Tettelin, C. Donati, R. Rappuoli, 2020, The Pangenome.

PIPE-chipSAD: A Pipeline for the Analysis of High Density Arrays of Bacterial Transcriptomes

C. Donati, L. Fagnocchi, S. Bottini, 2016, Front. Mol. Biosci..

Persistence and Microevolution of Pseudomonas aeruginosa in the Cystic Fibrosis Lung: A Single-Patient Longitudinal Genomic Study

O. Jousson, C. Donati, Alfonso Esposito, 2019, Front. Microbiol..

Antarctic cryptoendolithic bacterial lineages of pre-Cambrian origin as proxy for Mars colonization

S. Tringe, C. Donati, J. Stajich, 2020, bioRxiv.

Pangenomic Reverse Vaccinology

C. Donati, R. Rappuoli, D. Medini, 2010 .

Fumigation with dazomet modifies soil microbiota in apple orchards affected by replant disease

C. Donati, D. Cavalieri, M. Pindo, 2017 .

Microbiome of vineyard soils is shaped by geography and management

C. Donati, A. Cestaro, M. Pindo, 2019, Microbiome.

Serotype IV Streptococcus agalactiae ST-452 has arisen from large genomic recombination events between CC23 and the hypervirulent CC17 lineages

C. Donati, I. Margarit, C. D. Rinaudo, 2016, Scientific Reports.

New evidences on the altered gut microbiota in autism spectrum disorders

Duccio Cavalieri, Davide Albanese, Claudio Donati, 2017, Microbiome.

PA P ER A practical tool for Maximal Information Coe cient analysis

C. Donati, S. Riccadonna, D. Albanese, 2018 .

Apyrase-mediated amplification of secretory IgA promotes intestinal homeostasis.

V. Greiff, C. Donati, A. Macpherson, 2022, Cell reports.

Intergenerational Transfer of Persistent Bacterial Communities in Female Nile Tilapia

C. Donati, M. Pindo, V. Kiron, 2022, Frontiers in Microbiology.

Phylogeny of the SARS Coronavirus

C. Donati, R. Rappuoli, H. Doerr, 2003, Science.

An extended multi-locus molecular typing schema for Streptococcus pneumoniae demonstrates that a limited number of capsular switch events is responsible for serotype heterogeneity of closely related strains from different countries.

C. Donati, V. Masignani, G. Torricelli, 2013, Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases.

The Streptococcus pneumoniae Pilus-1 Displays a Biphasic Expression Pattern

C. Donati, V. Masignani, I. Delany, 2011, PloS one.

The Two Variants of the Streptococcus pneumoniae Pilus 1 RrgA Adhesin Retain the Same Function and Elicit Cross-Protection In Vivo

C. Donati, V. Masignani, M. Pizza, 2010, Infection and Immunity.

Draft Genome Sequences of 40 Pseudomonas aeruginosa Clinical Strains Isolated from the Sputum of a Single Cystic Fibrosis Patient Over an 8-Year Period

O. Jousson, C. Donati, Alfonso Esposito, 2016, Genome Announcements.

Genome sequencing provides new insights on the distribution of Erwinia amylovora lineages in northern Italy

C. Donati, M. Pindo, Simone Larger, 2022, Environmental microbiology reports.

Pilus Operon Evolution in Streptococcus pneumoniae Is Driven by Positive Selection and Recombination

C. Donati, R. Rappuoli, A. Muzzi, 2008, PloS one.

Streptococcus pneumoniae contains 3 rlrA pilus variants that are clonally related.

W. Hanage, C. Donati, R. Rappuoli, 2008, The Journal of infectious diseases.

A Second Pilus Type in Streptococcus pneumoniae Is Prevalent in Emerging Serotypes and Mediates Adhesion to Host Cells

C. Donati, R. Rappuoli, V. Masignani, 2008, Journal of bacteriology.

Highly diverse and unknown viruses may enhance Antarctic endoliths’ adaptability

S. Tringe, C. Donati, J. Stajich, 2022, bioRxiv.

Distinct and Temporally Stable Assembly Mechanisms Shape Bacterial and Fungal Communities in Vineyard Soils.

C. Donati, A. Cestaro, M. Pindo, 2022, Microbial ecology.

Genome sequencing of disease and carriage isolates of nontypeable Haemophilus influenzae identifies discrete population structure

Claudio Donati, Rino Rappuoli, Matteo De Chiara, 2014, Proceedings of the National Academy of Sciences.

Responses of cucumber (Cucumis sativus L.) rhizosphere microbial community to some agronomic management practices.

C. Donati, M. Pindo, E. Stefani, 2021, FEMS microbiology ecology.

Age and Gender Affect the Composition of Fungal Population of the Human Gastrointestinal Tract

O. Jousson, C. Donati, D. Cavalieri, 2016, Front. Microbiol..

SaccharomycesIDentifier, SID: strain-level analysis of Saccharomyces cerevisiae populations by using microsatellite meta-patterns

C. Donati, D. Cavalieri, J. Legras, 2017, Scientific Reports.

New evidences on the altered gut microbiota in autism spectrum disorders

O. Jousson, C. Donati, D. Cavalieri, 2017, Microbiome.

On the Origin and Propagation of the COVID-19 Outbreak in the Italian Province of Trento, a Tourist Region of Northern Italy

N. Segata, P. Fontana, C. Donati, 2022, Viruses.

Alteration of Fecal Microbiota Profiles in Juvenile Idiopathic Arthritis. Associations with HLA-B27 Allele and Disease Status

C. Donati, D. Cavalieri, M. Pindo, 2016, Frontiers in Microbiology.

Altered gut microbiota in Rett syndrome

O. Jousson, C. Donati, D. Cavalieri, 2016, Microbiome.

Towards a universal group B Streptococcus vaccine using multistrain genome analysis

H. Tettelin, C. Donati, D. Medini, 2006, Expert review of vaccines.

Large scale genome reconstructions illuminate Wolbachia evolution

N. Segata, Matthias Scholz, C. Donati, 2020, Nature Communications.

Interactions between parasitic helminths and gut microbiota in wild tropical primates from intact and fragmented habitats

F. Rovero, C. Donati, H. Hauffe, 2021, Scientific Reports.

Insulin Resistance, Microbiota, and Fat Distribution Changes by a New Model of Vertical Sleeve Gastrectomy in Obese Rats

N. Basso, C. Donati, S. Bornstein, 2016, Diabetes.

Explaining Diversity in Metagenomic Datasets by Phylogenetic-Based Feature Weighting

Duccio Cavalieri, Davide Albanese, Carlotta De Filippo, 2015, PLoS Comput. Biol..

Uncovering oral Neisseria tropism and persistence using metagenomic sequencing

C. Huttenhower, N. Segata, F. Asnicar, 2016, Nature Microbiology.

Characterization of human breast tissue microbiota from core needle biopsies through the analysis of multi hypervariable 16S-rRNA gene regions

C. Donati, S. Magno, R. Masetti, 2018, Scientific Reports.

Deep Sequencing in Pre- and Clinical Vaccine Research

C. Donati, R. Rappuoli, F. Bagnoli, 2013, Public Health Genomics.

Population genetics and evolution of the pan-genome of Streptococcus pneumoniae.

C. Donati, A. Muzzi, 2011, International journal of medical microbiology : IJMM.

Raw milk and fecal microbiota of commercial Alpine dairy cows varies with herd, fat content and diet

C. Donati, H. Hauffe, M. Pindo, 2020, PloS one.

Reduced diversity of gut microbiota in two Aedes mosquitoes species in areas of recent invasion

C. Donati, A. Rizzoli, M. Pindo, 2018, Scientific Reports.

Pre-Cambrian roots of novel Antarctic cryptoendolithic bacterial lineages

S. Tringe, C. Donati, J. Stajich, 2021, Microbiome.

Diversity and Cyclical Seasonal Transitions in the Bacterial Community in a Large and Deep Perialpine Lake

Davide Albanese, Claudio Donati, Nico Salmaso, 2017, Microbial Ecology.

Temperature drives the assembly of endophytic communities' seasonal succession

C. Donati, S. Yousaf, D. Albanese, 2017, Environmental microbiology.

aweMAGs: a fully automated workflow for quality assessment and annotation of eukaryotic genomes from metagenomes

C. Donati, L. Selbmann, Claudia Coleine, 2023, bioRxiv.

A practical tool for maximal information coefficient analysis

Davide Albanese, Claudio Donati, Samantha Riccadonna, 2017, bioRxiv.

Habitat fragmentation is associated to gut microbiota diversity of an endangered primate: implications for conservation

F. Rovero, C. Donati, D. Cavalieri, 2015, Scientific Reports.

MICCA: a complete and accurate software for taxonomic profiling of metagenomic data

Duccio Cavalieri, Davide Albanese, Claudio Donati, 2015, Scientific Reports.

Power Play of Commensal Bacteria in the Buccal Cavity of Female Nile Tilapia

C. Donati, V. Kiron, D. Albanese, 2021, Frontiers in Microbiology.

Breeding Strategy Shapes the Composition of Bacterial Communities in Female Nile Tilapia Reared in a Recirculating Aquaculture System

C. Donati, Simone Larger, V. Kiron, 2021, Frontiers in Microbiology.

Genome Recovery, Functional Profiling, and Taxonomic Classification from Metagenomes.

C. Donati, D. Albanese, 2021, Methods in molecular biology.

Large-scale quality assessment of prokaryotic genomes with metashot/prok-quality

C. Donati, D. Albanese, 2021, F1000Research.

Genomic Analysis Reveals the Molecular Basis for Capsule Loss in the Group B Streptococcus Population

H. Tettelin, C. Donati, I. Margarit, 2015, PloS one.

Core Microbiota and Metabolome of Vitis vinifera L. cv. Corvina Grapes and Musts

Duccio Cavalieri, Davide Albanese, Claudio Donati, 2017, Front. Microbiol..

A Novel Computational Method Identifies Intra- and Inter-Species Recombination Events in Staphylococcus aureus and Streptococcus pneumoniae

Simona Toti, Claudio Donati, Lisa Sanguinetti, 2012, PLoS Comput. Biol..

Intestinal Candida parapsilosis isolates from Rett syndrome subjects bear potential virulent traits and capacity to persist within the host

O. Jousson, C. Donati, D. Cavalieri, 2018, BMC Gastroenterology.

Legal immigrants: invasion of alien microbial communities during winter occurring desert dust storms

C. Donati, D. Cavalieri, F. Miglietta, 2017, Microbiome.

The Microbial Pangenome: Implications for Vaccine Development

C. Donati, R. Rappuoli, A. Nuccitelli, 2011 .

Alpine headwaters emerging from glaciers and rock glaciers host different bacterial communities: Ecological implications for the future.

C. Donati, M. Pindo, M. Rogora, 2020, The Science of the total environment.

Sequence Analysis of 96 Genomic Regions Identifies Distinct Evolutionary Lineages within CC156, the Largest Streptococcus pneumoniae Clonal Complex in the MLST Database

C. Donati, G. Torricelli, A. Muzzi, 2013, PloS one.

Protein Homology Network Families Reveal Step-Wise Diversification of Type III and Type IV Secretion Systems

Claudio Donati, Duccio Medini, Antonello Covacci, 2006, PLoS Comput. Biol..

Correction: Structure and dynamics of the pan-genome of Streptococcus pneumoniae and closely related species

David R. Riley, Samuel V. Angiuoli, H. Tettelin, 2011, Genome Biology.

riboFrame: An Improved Method for Microbial Taxonomy Profiling from Non-Targeted Metagenomics

C. Donati, D. Cavalieri, L. Berná, 2015, Front. Genet..

Tissue age, orchard location and disease management influence the composition of fungal and bacterial communities present on the bark of apple trees.

C. Donati, M. Perazzolli, D. Albanese, 2020, Environmental microbiology.

Characterization of human breast tissue microbiota from core needle biopsies through the analysis of multi hypervariable 16S-rRNA gene regions

C. Donati, S. Magno, D. Albanese, 2018, Scientific Reports.

Epitope mapping of a bactericidal monoclonal antibody against the factor H binding protein of Neisseria meningitidis.

C. Donati, R. Rappuoli, L. Banci, 2009, Journal of molecular biology.

The Hfq-Dependent Small Noncoding RNA NrrF Directly Mediates Fur-Dependent Positive Regulation of Succinate Dehydrogenase in Neisseria meningitidis

C. Donati, D. Serruto, L. Fantappiè, 2008, Journal of bacteriology.

Diversity and Cyclical Seasonal Transitions in the Bacterial Community in a Large and Deep Perialpine Lake

C. Donati, M. Pindo, N. Salmaso, 2018, Microbial Ecology.

Dynamic changes in microbiota and mycobiota during spontaneous ‘Vino Santo Trentino’ fermentation

C. Donati, D. Cavalieri, E. Franciosi, 2016, Microbial biotechnology.

Immunological fingerprint of 4CMenB recombinant antigens via protein microarray reveals key immunosignatures correlating with bactericidal activity

F. Felici, C. Donati, R. Rappuoli, 2020, Nature Communications.

Conservation of Meningococcal Antigens in the Genus Neisseria

C. Donati, R. Rappuoli, M. Pizza, 2013, mBio.

Microbial genomes and vaccine design: refinements to the classical reverse vaccinology approach.

Claudio Donati, Rino Rappuoli, Duccio Medini, 2006, Current opinion in microbiology.

Metagenomics untangles metabolic adaptations of Antarctic endolithic bacteria at the fringe of habitability

S. Tringe, T. Williams, C. Donati, 2023, bioRxiv.

Shed Light in the DaRk LineagES of the Fungal Tree of Life—STRES

N. Segata, C. Donati, J. Stajich, 2020, Life.

Metagenomes in the Borderline Ecosystems of the Antarctic Cryptoendolithic Communities

S. Tringe, C. Donati, J. Stajich, 2019, Microbiology Resource Announcements.

Draft Genome Sequences of Novel Pseudomonas, Flavobacterium, and Sediminibacterium Species Strains from a Freshwater Ecosystem

Edoardo Pasolli, N. Segata, F. Asnicar, 2018, Genome Announcements.

Draft Genome Sequence of the Planktic Cyanobacterium Tychonema bourrellyi, Isolated from Alpine Lentic Freshwater

Edoardo Pasolli, N. Segata, F. Asnicar, 2017, Genome Announcements.

DNA sequence and taxonomic gap analyses to quantify the coverage of aquatic cyanobacteria and eukaryotic microalgae in reference databases: Results of a survey in the Alpine region.

F. Lepori, C. Donati, M. Pindo, 2022, The Science of the total environment.

Genome sequencing of disease and carriage isolates of nontypeable Haemophilus influenzae identifies discrete population structure

G. Dougan, C. Donati, R. Rappuoli, 2014, Proceedings of the National Academy of Sciences.

Correction for Pinto et al., “Draft Genome Sequences of Novel Pseudomonas, Flavobacterium, and Sediminibacterium Strains from a Freshwater Ecosystem”

Edoardo Pasolli, N. Segata, F. Asnicar, 2018, Genome Announcements.