Early-life development of the gut virome and plasmidome: A longitudinal study in cesarean-born infants
Summary: Mobile genetic elements (MGE) are critical yet understudied determinants of gut microbiome composition. In this secondary analysis of a randomized controlled trial (NCT06030713), we characterized the gut virome and plasmidome in 195 samples from 28 mother–infant dyads delivered by cesarean...
Saved in:
| Main Authors: | , , , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Elsevier
2025-06-01
|
| Series: | Cell Reports |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S2211124725005029 |
| Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
| _version_ | 1850270741227896832 |
|---|---|
| author | Asier Fernández-Pato Trishla Sinha Sanzhima Garmaeva Anastasia Gulyaeva Nataliia Kuzub Simon Roux Jingyuan Fu Alexander Kurilshikov Alexandra Zhernakova |
| author_facet | Asier Fernández-Pato Trishla Sinha Sanzhima Garmaeva Anastasia Gulyaeva Nataliia Kuzub Simon Roux Jingyuan Fu Alexander Kurilshikov Alexandra Zhernakova |
| author_sort | Asier Fernández-Pato |
| collection | DOAJ |
| description | Summary: Mobile genetic elements (MGE) are critical yet understudied determinants of gut microbiome composition. In this secondary analysis of a randomized controlled trial (NCT06030713), we characterized the gut virome and plasmidome in 195 samples from 28 mother–infant dyads delivered by cesarean section. Infant mobilome increases in richness over the first 6 postnatal weeks, demonstrating high individual-specificity and temporal stability, establishing a personal persistent mobilome. Formula-fed infants exhibit greater mobilome richness than breastfed infants, with plasmid composition being influenced by antibiotic exposure and birth weight. Plasmids constitute a reservoir of antibiotic resistance genes (ARG), with around 5% of infant gut plasmid taxonomic units carrying ARG. Notably, ARG profiles do not differ with antibiotic exposure at birth. Mother–infant sharing of viral and plasmid strains primarily occurs after 6 months of age. Overall, our integrative analysis offers insights into the dynamics, modulation, and origin of MGE in the developing gut microbiome. |
| format | Article |
| id | doaj-art-3020da626c1445a590bb3c6fbb12829a |
| institution | OA Journals |
| issn | 2211-1247 |
| language | English |
| publishDate | 2025-06-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Cell Reports |
| spelling | doaj-art-3020da626c1445a590bb3c6fbb12829a2025-08-20T01:52:26ZengElsevierCell Reports2211-12472025-06-0144611573110.1016/j.celrep.2025.115731Early-life development of the gut virome and plasmidome: A longitudinal study in cesarean-born infantsAsier Fernández-Pato0Trishla Sinha1Sanzhima Garmaeva2Anastasia Gulyaeva3Nataliia Kuzub4Simon Roux5Jingyuan Fu6Alexander Kurilshikov7Alexandra Zhernakova8Department of Genetics, University of Groningen, University Medical Center Groningen, 9713GZ Groningen, the NetherlandsDepartment of Genetics, University of Groningen, University Medical Center Groningen, 9713GZ Groningen, the NetherlandsDepartment of Genetics, University of Groningen, University Medical Center Groningen, 9713GZ Groningen, the NetherlandsDepartment of Genetics, University of Groningen, University Medical Center Groningen, 9713GZ Groningen, the NetherlandsDepartment of Genetics, University of Groningen, University Medical Center Groningen, 9713GZ Groningen, the NetherlandsUS Department of Energy, Joint Genome Institute, Berkeley, CA 94720, USADepartment of Genetics, University of Groningen, University Medical Center Groningen, 9713GZ Groningen, the Netherlands; Department of Pediatrics, University of Groningen, University Medical Center Groningen, 9713GZ Groningen, the NetherlandsDepartment of Genetics, University of Groningen, University Medical Center Groningen, 9713GZ Groningen, the NetherlandsDepartment of Genetics, University of Groningen, University Medical Center Groningen, 9713GZ Groningen, the Netherlands; Corresponding authorSummary: Mobile genetic elements (MGE) are critical yet understudied determinants of gut microbiome composition. In this secondary analysis of a randomized controlled trial (NCT06030713), we characterized the gut virome and plasmidome in 195 samples from 28 mother–infant dyads delivered by cesarean section. Infant mobilome increases in richness over the first 6 postnatal weeks, demonstrating high individual-specificity and temporal stability, establishing a personal persistent mobilome. Formula-fed infants exhibit greater mobilome richness than breastfed infants, with plasmid composition being influenced by antibiotic exposure and birth weight. Plasmids constitute a reservoir of antibiotic resistance genes (ARG), with around 5% of infant gut plasmid taxonomic units carrying ARG. Notably, ARG profiles do not differ with antibiotic exposure at birth. Mother–infant sharing of viral and plasmid strains primarily occurs after 6 months of age. Overall, our integrative analysis offers insights into the dynamics, modulation, and origin of MGE in the developing gut microbiome.http://www.sciencedirect.com/science/article/pii/S2211124725005029CP: MicrobiologyCP: Genomics |
| spellingShingle | Asier Fernández-Pato Trishla Sinha Sanzhima Garmaeva Anastasia Gulyaeva Nataliia Kuzub Simon Roux Jingyuan Fu Alexander Kurilshikov Alexandra Zhernakova Early-life development of the gut virome and plasmidome: A longitudinal study in cesarean-born infants Cell Reports CP: Microbiology CP: Genomics |
| title | Early-life development of the gut virome and plasmidome: A longitudinal study in cesarean-born infants |
| title_full | Early-life development of the gut virome and plasmidome: A longitudinal study in cesarean-born infants |
| title_fullStr | Early-life development of the gut virome and plasmidome: A longitudinal study in cesarean-born infants |
| title_full_unstemmed | Early-life development of the gut virome and plasmidome: A longitudinal study in cesarean-born infants |
| title_short | Early-life development of the gut virome and plasmidome: A longitudinal study in cesarean-born infants |
| title_sort | early life development of the gut virome and plasmidome a longitudinal study in cesarean born infants |
| topic | CP: Microbiology CP: Genomics |
| url | http://www.sciencedirect.com/science/article/pii/S2211124725005029 |
| work_keys_str_mv | AT asierfernandezpato earlylifedevelopmentofthegutviromeandplasmidomealongitudinalstudyincesareanborninfants AT trishlasinha earlylifedevelopmentofthegutviromeandplasmidomealongitudinalstudyincesareanborninfants AT sanzhimagarmaeva earlylifedevelopmentofthegutviromeandplasmidomealongitudinalstudyincesareanborninfants AT anastasiagulyaeva earlylifedevelopmentofthegutviromeandplasmidomealongitudinalstudyincesareanborninfants AT nataliiakuzub earlylifedevelopmentofthegutviromeandplasmidomealongitudinalstudyincesareanborninfants AT simonroux earlylifedevelopmentofthegutviromeandplasmidomealongitudinalstudyincesareanborninfants AT jingyuanfu earlylifedevelopmentofthegutviromeandplasmidomealongitudinalstudyincesareanborninfants AT alexanderkurilshikov earlylifedevelopmentofthegutviromeandplasmidomealongitudinalstudyincesareanborninfants AT alexandrazhernakova earlylifedevelopmentofthegutviromeandplasmidomealongitudinalstudyincesareanborninfants |