PXD024077

PXD024077 is an original dataset announced via ProteomeXchange.

Title	Influenza A H1N1 induced disturbance of the respiratory and gastrointestinal microbiome - a multi-omics characterization
Description	Seasonal influenza outbreaks represent a large burden for the healthcare system as well as the economy. While the role of the microbiome in the context of various diseases has been elucidated, the effects on the respiratory and gastrointestinal microbiome during influenza illness is largely unknown. Therefore, this study aimed to characterize the temporal development of the respiratory and gastrointestinal microbiome of swine using a multi-omics approach prior and during influenza infection. Swine is a suitable animal model for influenza research, as it is closely related to humans and a natural host for influenza viruses. Our results showed that IAV infection resulted in significant changes in the abundance of Moraxellaceae and Pasteurellaceae families in the upper respiratory tract. To our surprise, temporal development of the respiratory microbiome was not affected. Furthermore, we observed significantly altered microbial richness and diversity in the gastrointestinal microbiome after IAV infection. In particular, we found increased abundances of Prevotellaceae, while Clostridiaceae and Lachnospiraceae decreased. Furthermore, metaproteomics showed that the functional composition of the microbiome, known to be robust and stable under healthy conditions, was heavily affected by the influenza infection. Metabolome analysis proved increased amounts of short-chain fatty acids in the gastrointestinal tract, which might be involved in faster recovery. Furthermore, metaproteome data suggest a possible immune response towards flagellated Clostridia induced during the infection. Therefore, it can be assumed that the respiratory infection with IAV caused a systemic effect in the porcine host and microbiome.
HostingRepository	PRIDE
AnnounceDate	2022-02-16
AnnouncementXML	Submission_2022-02-16_15:21:39.205.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Daniela Zuehlke
SpeciesList	scientific name: Sus scrofa; NCBI TaxID: 9823;
ModificationList	monohydroxylated residue
Instrument	LTQ Orbitrap Velos

Revision	Datetime	Status	ChangeLog Entry
0	2021-02-09 03:29:57	ID requested
⏵ 1	2022-02-16 15:21:40	announced

Gierse LC, Meene A, Schultz D, Schwaiger T, Schr, ö, der C, M, ü, cke P, Z, ü, hlke D, Hinzke T, Wang H, Methling K, Kreikemeyer B, Bernhardt J, Becher D, Mettenleiter TC, Lalk M, Urich T, Riedel K, Influenza A H1N1 Induced Disturbance of the Respiratory and Fecal Microbiome of German Landrace Pigs - a Multi-Omics Characterization. Microbiol Spectr, 9(2):e0018221(2021) [pubmed]

submitter keyword: microbiome, influenza, metaproteomics, 16S rRNA, gastrointestinal, metabolomics

Katharina Riedel
contact affiliation	University of Greifswald, Institute of Microbiology, Department of Microbial Physiology and Molecular Biology
contact email	riedela@uni-greifswald.de
lab head
Daniela Zuehlke
contact affiliation	University of Greifswald, Institute of Microbiology
contact email	zuehlke@uni-greifswald.de
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2022/02/PXD024077

PRIDE project URI

• PRIDE
  1. PXD024077
     1. Label: PRIDE project
     2. Name: Influenza A H1N1 induced disturbance of the respiratory and gastrointestinal microbiome - a multi-omics characterization