Welcome!
I’m a postdoctoral scholar in the Laboratory of Prof. Ran Blekhman at the University of Chicago, where I study microbial transmission through metagenomic and genomic approaches. I am interested in studying how commensal as well as pathogenic bacteria spread and persist in individuals that are in close social contact. In particular, my current projects are focused on:
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Investigating strain transmission between maternal breast milk and her infant’s gut microbiome. The maternal milk often represents the sole source of nutrition for the baby for the first months of life, and yet very little is known about its microbial composition at the species and strain level. This study aims at studying the maternal milk microbiome in relation to the infant’s gut microbiome, and to better represent maternal milk in public repositoriese. This project is in collaboration with Prof. Cheryl Gale and Prof. Ellen Demerath.
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Investigating microbiome and antimicrobial resistance genes transmission in the hospital context. Hospitals represent a hotspot for the development of antimicrobial resistance and the acquisition of pathobionts during hospitalization can have serious health consequences. This project is in collaboration with the SET Center at the University of Chicago.
In addition, I’m involved in projects studying strain transmission within social groups of wild animals, in particular of wild baboons. This project is part of the Amboseli Baboon Research Project and it is a collaboration with the labs of Prof. Elizabeth Archie and Prof. Jenny Tung.
Most Recent News
An overview of all news can be found here.Feb 20, 2025 | The 16S Compendium paper won the cover of Cell! |
Jan 22, 2025 | Our compendium of 168,000 amplicon samples is out in Cell! Excited to have contributed to the article and its graphical illustration |
Dec 18, 2024 | Check out our new preprint on Eukaryotic composition across seasons and social groups in the gut microbiota of wild baboons led by Mary Chege |
Nov 15, 2024 | Very excited to see this paper finally out in Cell: Fecal microbial load is a major determinant of gut microbiome variation and a confounder for disease associations |
Nov 2, 2024 | Great experience attending CSHL Microbiome! I presented our work on milk and infant gut microbiome, and the talented student Mary Chege presented our work on the eukaryotes in the gut of wild baboons. |
Selected Publications
- Assembly, stability, and dynamics of the infant gut microbiome are linked to bacterial strains and functions in mother’s milkbioRxiv, 2024
- SPIRE: a Searchable, Planetary-scale mIcrobiome REsourceNucleic Acids Research, 2023
- C. difficile may be overdiagnosed in adults and is a prevalent commensal in infantseLife, 2023
- Meconium microbiome of very preterm infants across GermanyMSphere, 2022
- Diversity within species: interpreting strains in microbiomesNature Reviews Microbiology, 2020
- Mother-to-infant microbial transmission from different body sites shapes the developing infant gut microbiomeCell host & microbe, 2018