The administration of intranasal live attenuated influenza vaccine induces changes in the nasal microbiota and nasal epithelium gene expression profiles

Tarabichi, Y.; Li, K.; Hu, S.; Nguyen, C.; Wang, X.; Elashoff, D.; Saira, K.; Frank, Bryan; Bihan, Monika; Ghedin, E.; Methé, Barbara A.; Deng, Jane C.

doi:10.1186/s40168-015-0133-2

Cited by 77Influenza Virus Research StudiesGut microbiota and healthMicrobial infections and disease research

The administration of intranasal live attenuated influenza vaccine induces changes in the nasal microbiota and nasal epithelium gene expression profiles

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Tarabichi, Y., Li, K., Hu, S., Nguyen, C., Wang, X., Elashoff, D., Saira, K., Frank, Bryan +4 more·2015·Microbiome

DOI 10.1186/s40168-015-0133-2PMC PMC4678663

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Abstract

BACKGROUND: Viral infections such as influenza have been shown to predispose hosts to increased colonization of the respiratory tract by pathogenic bacteria and secondary bacterial pneumonia. To examine how viral infections and host antiviral immune responses alter the upper respiratory microbiota, we analyzed nasal bacterial composition by 16S ribosomal RNA (rRNA) gene sequencing in healthy adults at baseline and at 1 to 2 weeks and 4 to 6 weeks following instillation of live attenuated influenza vaccine or intranasal sterile saline. A subset of these samples was submitted for microarray host gene expression profiling. RESULTS: We found that live attenuated influenza vaccination led to significant changes in microbial community structure, diversity, and core taxonomic membership as well as increases in the relative abundances of Staphylococcus and Bacteroides genera (both p < 0.05). Hypergeometric testing for the enrichment of gene ontology terms in the vaccinated group reflected a robust up-regulation of type I and type II interferon-stimulated genes in the vaccinated group relative to controls. Translational murine studies showed that poly I:C administration did in fact permit greater nasal Staphylococcus aureus persistence, a response absent in interferon alpha/beta receptor deficient mice. CONCLUSIONS: Collectively, our findings demonstrate that although the human nasal bacterial community is heterogeneous and typically individually robust, activation of a type I interferon (IFN)-mediated antiviral response may foster the disproportionate emergence of potentially pathogenic species such as S. aureus. TRIAL REGISTRATION: This study was registered with Clinicaltrials.gov on 11/3/15, NCT02597647 .

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Longitudinal studies conducted in healthy volunteers who underwent experimental self-innoculation with rhinovirus failed to demonstrate significant changes in diversity of the URT microbiome.
“Longitudinal studies conducted in healthy volunteers who underwent experimental self-innoculation with rhinovirus also failed to demonstrate significant changes in diversity of the URT microbiome”
From Respiratory viral infection-induced microbiome alterations and secondary bacterial pneumonia. (2018) · cites this paper as [107]
Administration of LAIV vaccine to healthy adults led to increases in diversity measures following viral challenge.
“while administration of LAIV vaccine to healthy adults led to increases in diversity measures following viral challenge (73, 107).”
From Respiratory viral infection-induced microbiome alterations and secondary bacterial pneumonia. (2018) · cites this paper as [107]
These changes were not observed in subjects given saline nasal spray.
“These changes were not observed in subjects given saline nasal spray.”
From Respiratory viral infection-induced microbiome alterations and secondary bacterial pneumonia. (2018) · cites this paper as [107]
In healthy adult volunteers, intranasal LAIV administration induced an increase in the diversity of the nasopharyngeal microbiome, as well as relative abundances of Staphylococcus and Bacteroides.
“In healthy adult volunteers, it was demonstrated that intranasal LAIV administration induced an increase in the diversity of the nasopharyngeal microbiome, as well as relative abundances of Staphylococcus and Bacteroides (107).”
From Respiratory viral infection-induced microbiome alterations and secondary bacterial pneumonia. (2018) · cites this paper as [107]
Nasopharyngeal microbiota composition has been shown to be altered by influenza vaccination.
“Nasopharyngeal microbiota composition has been shown to be altered by influenza vaccination (Figure 3).”
From Respiratory viral infection-induced microbiome alterations and secondary bacterial pneumonia. (2018) · cites this paper as [107]

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Additional file 2 of Symbiotic microbiome Staphylococcus aureus from human nasal mucus modulates IL-33-mediated type 2 immune responses in allergic nasal mucosa
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Additional file 3 of Symbiotic microbiome Staphylococcus aureus from human nasal mucus modulates IL-33-mediated type 2 immune responses in allergic nasal mucosa
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The Administration of Intranasal Live Attenuated Influenza Vaccine Induces Changes in the Nasal Microbiota and Nasal Epithelium Gene Expression Profile
Tarabichi, Y. (2015) · eScholarship (California Digital Library)
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Additional file 9: Table S5. of The administration of intranasal live attenuated influenza vaccine induces changes in the nasal microbiota and nasal epithelium gene expression profiles
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Additional file 8: Table S4. of The administration of intranasal live attenuated influenza vaccine induces changes in the nasal microbiota and nasal epithelium gene expression profiles
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Taxa of the nasal microbiome are associated with influenza-specific IgA response to live attenuated influenza vaccine
Salk, H. M., Simon, W. L., Lambert, N. D., Kennedy, R. B., Grill, D. E., Kabat, B. F., & Poland, G. A. (2016) · PLoS ONE · doi:10.1371/journal.pone.0162803 · Cited by 75 · see citing works
Intranasal vaccination with live attenuated influenza vaccine increases diversity of the human nasal microbiome (VAC8P.1001)
Lambert, N. D., Salk, H. M., Kennedy, R., Chia, N., Grill, D. E., Jacobson, R. M., & Poland, G. A. (2014) · The Journal of Immunology · doi:10.4049/jimmunol.192.supp.142.7 · Cited by 1 · see citing works

Authors: Tarabichi, Y., Li, K., Hu, S., Nguyen, C., Wang, X., Elashoff, D., Saira, K., Frank, B., Bihan, M., Ghedin, E., Methé, B. A., & Deng, J. C.
Affiliations: University of California, Los Angeles (US)
J. Craig Venter Institute (US)
Southern Research Institute (US)
University of Pittsburgh (US)
Corresponding author: Methé, Barbara A.
Deng, Jane C.
ORCID: Tarabichi, Y.
Nguyen, C.
Elashoff, D.
Ghedin, E.
Methé, Barbara A.
Deng, Jane C.
Venue: Microbiome
Publisher: Springer Science and Business Media LLC
Published: 2015-12
Volume: 3
Issue: 1
Pages: 74-74
ISSN: 2049-2618 (ISSN-L)
DOI: 10.1186/s40168-015-0133-2
PMC: PMC4678663
OpenAlex: W1125694555
Cited by: 77
References: 70
Citations by year: 2026: 4 · 2025: 3 · 2024: 4 · 2023: 5 · 2022: 13 · 2021: 5 · 2020: 11 · 2019: 7 · 2018: 11 · 2017: 8 · 2016: 6
FWCI: 6.53
Type: journal article
Language: en
Open access: gold
doi.org
Licence: cc-by
creativecommons.org/licenses/by/4.0/ (tdm)
creativecommons.org/licenses/by/4.0/ (vor, 14 d)
Locations: Microbiome (publishedVersion, cc-by)
PubMed Central (publishedVersion, cc-by)
PubMed (publishedVersion)
D-Scholarship@Pitt (University of Pittsburgh) (acceptedVersion)
Funders: National Institute Of Allergy And Infectious Diseases of the National Institutes of Health (HHNS272200900007C)
National Institutes of Health (HL108949, T32HL072752)
National Institutes of Health/National Center for Advancing Translational Science (NCATS) UCLA CTSI (UL1TR000124)
Topics: Health Sciences › Medicine › Epidemiology › Influenza Virus Research Studies
Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gut microbiota and health
Life Sciences › Immunology and Microbiology › Microbiology › Microbial infections and disease research
Keywords: live attenuated influenza vaccine, nasal microbiota, upper respiratory tract microbiome, type I interferon response, interferon-stimulated genes, Staphylococcus aureus, Bacteroides, bacterial colonization, IFNAR, poly(I:C), host-virus interaction
MeSH terms: Administration, Intranasal, Adolescent, Adult, Aged, Animals, Bacteroides, Female, Humans, Influenza Vaccines, Interferon Type I, Male, Middle Aged, Nasal Mucosa, Poly I-C, RNA, Ribosomal, 16S, Staphylococcal Infections, Staphylococcus, Vaccines, Attenuated, Up-Regulation, Gene Expression Profiling, Mice, Receptor, Interferon alpha-beta, Young Adult, Microbiota, Healthy Volunteers

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The administration of intranasal live attenuated influenza vaccine induces changes in the nasal microbiota and nasal epithelium gene expression profiles

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