Machine Learning Monte Carlo Approaches and Statistical Physics Notions to Characterize Bacterial Species in Human Microbiota

Authors: Michele Bellingeri, Leonardo Mancabelli, Christian Milani, Gabriele Andrea Lugli, Roberto Alfieri, Massimiliano Turchetto, Marco Ventura, Davide Cassi

Source: Machine Learning and Knowledge Extraction, Vol 6, Iss 4, Pp 2375-2399 (2024)

Subject Terms: Monte Carlo simulation, machine learning, human microbiota, statistical physics, microcanonical ensemble, canonical ensemble, Computer engineering. Computer hardware, TK7885-7895

File Description: electronic resource

Relation: https://www.mdpi.com/2504-4990/6/4/117; https://doaj.org/toc/2504-4990

Access URL: https://doaj.org/article/b9c260fbd97843c2ade3b846bb15e653

Biological Effects of Micro-/Nano-Plastics in Macrophages

Authors: Massimiliano G. Bianchi, Lavinia Casati, Giulia Sauro, Giuseppe Taurino, Erika Griffini, Christian Milani, Marco Ventura, Ovidio Bussolati, Martina Chiu

Source: Nanomaterials, Vol 15, Iss 5, p 394 (2025)

Subject Terms: inflammation, MAFLD, IBD, innate immunity, macrophages, microbiota, Chemistry, QD1-999

File Description: electronic resource

Relation: https://www.mdpi.com/2079-4991/15/5/394; https://doaj.org/toc/2079-4991

Access URL: https://doaj.org/article/040547a4948c49eba267ae9b18233366

Exploring the vitamin biosynthesis landscape of the human gut microbiota

Authors: Chiara Tarracchini, Gabriele Andrea Lugli, Leonardo Mancabelli, Douwe van Sinderen, Francesca Turroni, Marco Ventura, Christian Milani

Source: mSystems, Vol 9, Iss 10 (2024)

Subject Terms: bacteria, micronutrients, microbiome, Microbiology, QR1-502

File Description: electronic resource

Relation: https://doaj.org/toc/2379-5077

Access URL: https://doaj.org/article/756f6f15d24343a2b8f6ec3b502178b8

Molecular cross-talk among human intestinal bifidobacteria as explored by a human gut model

Authors: Sonia Mirjam Rizzo, Giulia Alessandri, Chiara Tarracchini, Massimiliano G. Bianchi, Alice Viappiani, Leonardo Mancabelli, Gabriele Andrea Lugli, Christian Milani, Ovidio Bussolati, Douwe van Sinderen, Marco Ventura, Francesca Turroni

Source: Frontiers in Microbiology, Vol 15 (2024)

Subject Terms: Bifidobacterium, probiotic, co-association, gut microbiota, gut microbiome, co-culture, Microbiology, QR1-502

File Description: electronic resource

Relation: https://www.frontiersin.org/articles/10.3389/fmicb.2024.1435960/full; https://doaj.org/toc/1664-302X

Access URL: https://doaj.org/article/6a4d4771b85943f4b65cdd592c977a10

The core genome evolution of Lactobacillus crispatus as a driving force for niche competition in the human vaginal tract

Authors: Chiara Tarracchini, Chiara Argentini, Giulia Alessandri, Gabriele Andrea Lugli, Leonardo Mancabelli, Federico Fontana, Rosaria Anzalone, Alice Viappiani, Francesca Turroni, Marco Ventura, Christian Milani

Source: Microbial Biotechnology, Vol 16, Iss 9, Pp 1774-1789 (2023)

Subject Terms: Biotechnology, TP248.13-248.65

File Description: electronic resource

Relation: https://doaj.org/toc/1751-7915

Access URL: https://doaj.org/article/2ee0def7a6404e1383b582fac8b42fac

Taxonomic and metabolic development of the human gut microbiome across life stages: a worldwide metagenomic investigation

Authors: Leonardo Mancabelli, Christian Milani, Rosita De Biase, Fabiana Bocchio, Federico Fontana, Gabriele Andrea Lugli, Giulia Alessandri, Chiara Tarracchini, Alice Viappiani, Flora De Conto, Antonio Nouvenne, Andrea Ticinesi, Ovidio Bussolati, Tiziana Meschi, Rossana Cecchi, Francesca Turroni, Marco Ventura

Source: mSystems, Vol 9, Iss 4 (2024)

Subject Terms: human gut microbiome, human life span, shotgun metagenomics, human microbiota, Microbiology, QR1-502

File Description: electronic resource

Relation: https://doaj.org/toc/2379-5077

Access URL: https://doaj.org/article/c9ec34c6147d41c99174c8ec32c3d65b

Genomic and ecological approaches to identify the Bifidobacterium breve prototype of the healthy human gut microbiota

Authors: Chiara Argentini, Gabriele Andrea Lugli, Chiara Tarracchini, Federico Fontana, Leonardo Mancabelli, Alice Viappiani, Rosaria Anzalone, Leonora Angelini, Giulia Alessandri, Giulia Longhi, Massimiliano G. Bianchi, Giuseppe Taurino, Ovidio Bussolati, Christian Milani, Douwe van Sinderen, Francesca Turroni, Marco Ventura

Source: Frontiers in Microbiology, Vol 15 (2024)

Subject Terms: Bifidobacteria, microbiome, genomics, metagenomics, host-microbe interaction, Microbiology, QR1-502

File Description: electronic resource

Relation: https://www.frontiersin.org/articles/10.3389/fmicb.2024.1349391/full; https://doaj.org/toc/1664-302X

Access URL: https://doaj.org/article/9d610707be164a55b47a45e6c5b3ddb9

Genetic strategies for sex-biased persistence of gut microbes across human life

Authors: Chiara Tarracchini, Giulia Alessandri, Federico Fontana, Sonia Mirjam Rizzo, Gabriele Andrea Lugli, Massimiliano Giovanni Bianchi, Leonardo Mancabelli, Giulia Longhi, Chiara Argentini, Laura Maria Vergna, Rosaria Anzalone, Alice Viappiani, Francesca Turroni, Giuseppe Taurino, Martina Chiu, Silvia Arboleya, Miguel Gueimonde, Ovidio Bussolati, Douwe van Sinderen, Christian Milani, Marco Ventura

Source: Nature Communications, Vol 14, Iss 1, Pp 1-16 (2023)

Subject Terms: Science

File Description: electronic resource

Relation: https://doaj.org/toc/2041-1723

Access URL: https://doaj.org/article/f93d63a7937e4ac898153b02956bdc7a

Comprehensive insights from composition to functional microbe-based biodiversity of the infant human gut microbiota

Authors: Gabriele Andrea Lugli, Leonardo Mancabelli, Christian Milani, Federico Fontana, Chiara Tarracchini, Giulia Alessandri, Douwe van Sinderen, Francesca Turroni, Marco Ventura

Source: npj Biofilms and Microbiomes, Vol 9, Iss 1, Pp 1-13 (2023)

Subject Terms: Microbial ecology, QR100-130

File Description: electronic resource

Relation: https://doaj.org/toc/2055-5008

Access URL: https://doaj.org/article/c38aa33a467142929e6ff997207f7ad6

Changes in upper airways microbiota in ventilator-associated pneumonia

Authors: Laura Alagna, Leonardo Mancabelli, Federico Magni, Liliane Chatenoud, Gabriele Bassi, Silvia Del Bianco, Roberto Fumagalli, Francesca Turroni, Davide Mangioni, Guglielmo M. Migliorino, Christian Milani, Antonio Muscatello, Giovanni Nattino, Edoardo Picetti, Riccardo Pinciroli, Sandra Rossi, Tommaso Tonetti, Alessia Vargiolu, Alessandra Bandera, Marco Ventura, Giuseppe Citerio, Andrea Gori

Source: Intensive Care Medicine Experimental, Vol 11, Iss 1, Pp 1-14 (2023)

Subject Terms: Ventilator-associated pneumonia, VAP, Upper airways microbiota, 16S-rRNA microbial profiling, Cohort study, Mechanical ventilation, Medical emergencies. Critical care. Intensive care. First aid, RC86-88.9

File Description: electronic resource

Relation: https://doaj.org/toc/2197-425X

Access URL: https://doaj.org/article/fee85460d281408c8282efa83cbf3384

The human gut microbiome of athletes: metagenomic and metabolic insights

Authors: Federico Fontana, Giulia Longhi, Chiara Tarracchini, Leonardo Mancabelli, Gabriele Andrea Lugli, Giulia Alessandri, Francesca Turroni, Christian Milani, Marco Ventura

Source: Microbiome, Vol 11, Iss 1, Pp 1-12 (2023)

Subject Terms: Athletes, Microbiota, Metagenomics, Meta-Analysis, Enzyme, Synthase, Microbial ecology, QR100-130

File Description: electronic resource

Relation: https://doaj.org/toc/2049-2618

Access URL: https://doaj.org/article/052e2bbb44d6482cb0b606b0b1c8fbfb

Associations of central obesity and habitual food consumption with saliva microbiota and its enzymatic profiles – a pilot study in Finnish children

Authors: Nitin Agrawal, Federico Fontana, Chiara Tarracchini, Sohvi Lommi, Marco Ventura, Christian Milani, Heli Viljakainen

Source: Frontiers in Microbiology, Vol 14 (2024)

Subject Terms: metagenomics, sugar, dairy, fruit and vegetables, bacterial species, oral microbiome, Microbiology, QR1-502

File Description: electronic resource

Relation: https://www.frontiersin.org/articles/10.3389/fmicb.2023.1323346/full; https://doaj.org/toc/1664-302X

Access URL: https://doaj.org/article/1b97c3bf4152424580aef1ab44d04438

Disentangling the interactions between nasopharyngeal and gut microbiome and their involvement in the modulation of COVID-19 infection

Authors: Leonardo Mancabelli, Giuseppe Taurino, Andrea Ticinesi, Tecla Ciociola, Federica Vacondio, Christian Milani, Federico Fontana, Gabriele Andrea Lugli, Chiara Tarracchini, Giulia Alessandri, Alice Viappiani, Massimiliano Bianchi, Antonio Nouvenne, Alfredo Antonio Chetta, Francesca Turroni, Tiziana Meschi, Marco Mor, Ovidio Bussolati, Marco Ventura

Source: Microbiology Spectrum, Vol 11, Iss 5 (2023)

Subject Terms: COVID-19, nasopharyngeal microbiota, gut microbiome, microbiome, inflammation, Microbiology, QR1-502

File Description: electronic resource

Relation: https://doaj.org/toc/2165-0497

Access URL: https://doaj.org/article/6b8ea0164ae843d0a3940e6fd30d6a39

Exploring species-level infant gut bacterial biodiversity by meta-analysis and formulation of an optimized cultivation medium

Authors: Giulia Alessandri, Federico Fontana, Leonardo Mancabelli, Gabriele Andrea Lugli, Chiara Tarracchini, Chiara Argentini, Giulia Longhi, Alice Viappiani, Christian Milani, Francesca Turroni, Douwe van Sinderen, Marco Ventura

Source: npj Biofilms and Microbiomes, Vol 8, Iss 1, Pp 1-12 (2022)

Subject Terms: Microbial ecology, QR100-130

File Description: electronic resource

Relation: https://doaj.org/toc/2055-5008

Access URL: https://doaj.org/article/1fc1a7c7b54c443faf21574e31ac1d8a

Identification of a prototype human gut Bifidobacterium longum subsp. longum strain based on comparative and functional genomic approaches

Authors: Giulia Alessandri, Federico Fontana, Chiara Tarracchini, Sonia Mirjam Rizzo, Massimiliano G. Bianchi, Giuseppe Taurino, Martina Chiu, Gabriele Andrea Lugli, Leonardo Mancabelli, Chiara Argentini, Giulia Longhi, Rosaria Anzalone, Alice Viappiani, Christian Milani, Francesca Turroni, Ovidio Bussolati, Douwe van Sinderen, Marco Ventura

Source: Frontiers in Microbiology, Vol 14 (2023)

Subject Terms: probiotics, bifidobacteria, host–microbe interactions, microbe-microbe interactions, RNA sequencing, intestinal barrier, Microbiology, QR1-502

File Description: electronic resource

Relation: https://www.frontiersin.org/articles/10.3389/fmicb.2023.1130592/full; https://doaj.org/toc/1664-302X

Access URL: https://doaj.org/article/e362b1388cb3409ba6be242f64e453e5

Multifactorial Microvariability of the Italian Raw Milk Cheese Microbiota and Implication for Current Regulatory Scheme

Authors: Federico Fontana, Giulia Longhi, Giulia Alessandri, Gabriele Andrea Lugli, Leonardo Mancabelli, Chiara Tarracchini, Alice Viappiani, Rosaria Anzalone, Marco Ventura, Francesca Turroni, Christian Milani

Source: mSystems, Vol 8, Iss 1 (2023)

Subject Terms: raw milk cheese, microbiota, metagenomics, Microbiology, QR1-502

File Description: electronic resource

Relation: https://doaj.org/toc/2379-5077

Access URL: https://doaj.org/article/a8ed26eeb04c4fef85d657918e660ce4

Mapping bacterial diversity and metabolic functionality of the human respiratory tract microbiome

Authors: Leonardo Mancabelli, Christian Milani, Federico Fontana, Gabriele Andrea Lugli, Chiara Tarracchini, Francesca Turroni, Douwe van Sinderen, Marco Ventura

Source: Journal of Oral Microbiology, Vol 14, Iss 1 (2022)

Subject Terms: Human respiratory tract, oral microbiota, pulmonary, microbiome, shotgun metagenomics, sputum, Infectious and parasitic diseases, RC109-216, Microbiology, QR1-502

File Description: electronic resource

Relation: https://doaj.org/toc/2000-2297

Access URL: https://doaj.org/article/ff50409bd2984742a1856ef527170350

Guideline for the analysis of the microbial communities of the human upper airways

Authors: Leonardo Mancabelli, Tecla Ciociola, Gabriele Andrea Lugli, Chiara Tarracchini, Federico Fontanta, Alice Viappiani, Francesca Turroni, Andrea Ticinesi, Tiziana Meschi, Stefania Conti, Marco Ventura, Christian Milani

Source: Journal of Oral Microbiology, Vol 14, Iss 1 (2022)

Subject Terms: Metagenomics, shallow shotgun, microbiota, microbiome, Infectious and parasitic diseases, RC109-216, Microbiology, QR1-502

File Description: electronic resource

Relation: https://doaj.org/toc/2000-2297

Access URL: https://doaj.org/article/c39f3cfc3f024b4aa5dda71178ce9fcf

Gut microbe metabolism of small molecules supports human development across the early stages of life

Authors: Chiara Tarracchini, Federico Fontana, Leonardo Mancabelli, Gabriele Andrea Lugli, Giulia Alessandri, Francesca Turroni, Marco Ventura, Christian Milani

Source: Frontiers in Microbiology, Vol 13 (2022)

Subject Terms: metatranscriptomic, infant, gut, microbiota, development, Microbiology, QR1-502

File Description: electronic resource

Relation: https://www.frontiersin.org/articles/10.3389/fmicb.2022.1006721/full; https://doaj.org/toc/1664-302X

Access URL: https://doaj.org/article/e4683c0f8c494a2c88cf4dbd04bfcd12

Envisioning emerging frontiers on human gut microbiota and its applications

Authors: Marco Ventura, Christian Milani, Francesca Turroni, Douwe vanSinderen

Source: Microbial Biotechnology, Vol 14, Iss 1, Pp 12-17 (2021)

Subject Terms: Biotechnology, TP248.13-248.65

File Description: electronic resource

Relation: https://doaj.org/toc/1751-7915

Access URL: https://doaj.org/article/2b921531f94f45e19fa1f31a24b43d90