PXD020954-1

PXD020954 is an original dataset announced via ProteomeXchange.

Title	Chicken microbiome LC - MS / MS
Description	Bacteroidaceae are common gut microbiota members in all warm-blooded animals. However, if Bacteroidaceae are to be used as probiotics, the species selected for different hosts should reflect the natural distribution. In this study, we therefore evaluated host adaptation of bacterial species belonging to the family Bacteroidaceae. B. dorei, B. uniformis, B. xylanisolvens, B. ovatus, B. clarus, B. thetaiotaomicron and B. vulgatus represented human-adapted species while B. gallinaceum, B. caecigallinarum, B. mediterraneensis, B. caecicola, M. massiliensis, B. plebeius and B. coprocola were commonly detected in chicken but not human gut microbiota. There were 29 genes which were present in all human-adapted Bacteroides but absent from the genomes of all chicken isolates and these included genes required for the pentose cycle, and glutamate or histidine metabolism. These genes were expressed during an in vitro competitive assay, in which human-adapted Bacteroides species overgrew the chicken adapted isolates. Not a single gene specific for the chicken-adapted species was found. Instead, chicken adapted species exhibited signs of frequent horizontal gene transfer, of KUP, linA and sugE genes in particular. The differences in host adaptation should be considered when the new generation of probiotics for humans or chickens is designed.
HostingRepository	PRIDE
AnnounceDate	2020-09-28
AnnouncementXML	Submission_2020-09-27_23:58:25.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Zuzana Seidlerova
SpeciesList	scientific name: Bacteroides sp. 1_1_11; NCBI TaxID: 469584;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	LTQ Velos

Revision	Datetime	Status	ChangeLog Entry
0	2020-08-17 03:35:53	ID requested
⏵ 1	2020-09-27 23:58:25	announced

Dataset with its publication pending

submitter keyword: Microbiota, Microbiome, Chicken, Caecum, Bacteroides

doc. RNDr. RYCHLÍK Ivan, Ph.D.
contact affiliation	Veterinary Research Institute Department:MICROBIOLOGY AND ANTIMICROBIAL RESISTANCE Hudcova 296/70 621 00 Brno Czech Republic
contact email	rychlik@vri.cz
lab head
Zuzana Seidlerova
contact affiliation	Veterinary Research Institute Hudcova 296/70 621 00 Brno Czech Republic
contact email	seidlerova@vri.cz
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/2020/09/PXD020954

PRIDE project URI

• PRIDE
  1. PXD020954
     1. Label: PRIDE project
     2. Name: Chicken microbiome LC - MS / MS