PXD044070

PXD044070 is an original dataset announced via ProteomeXchange.

Title	Palaeoproteomic investigation of an ancient human skeleton with abnormal deposition of dental calculus
Description	Detailed investigation of extremely severe pathological conditions present in ancient human skeletons is important because they can illuminate the breadth of potential interactions between humans and disease etiologies in the past. Here, we applied palaeoproteomics to investigate the bacterial pathogenic factors and host defense response to an ancient human skeletal individual with severe oral pathology. This female skeleton, from the Okhotsk period (i.e., 5th–13th century) of northern Japan, poses abnormal deposition of large amounts of dental calculus and oral dysfunction due to severe periodontal disease. A shotgun mass-spectrometry analysis identified 81 human proteins and 15 bacterial proteins from her calculus. Two pathogenic or bio-invasive proteins originating from two of the three “red complex” bacteria, the core species associated with severe periodontal disease in modern humans, as well as additional two bio-invasive proteins of periodont-associated bacteria were identified. Human proteins associated with the defense response system were identified, but their proportion was mostly similar to that reported in ancient and modern human individuals with lower calculus deposition. These results suggest that the bacterial etiology was similar and the host defense response was not necessarily higher in ancient individuals with abnormal deposition of large amounts of dental calculus.
HostingRepository	PRIDE
AnnounceDate	2024-04-01
AnnouncementXML	Submission_2024-04-01_02:24:08.182.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Yoko Uchida-Fukuhara
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue
Instrument	LTQ Orbitrap

Revision	Datetime	Status	ChangeLog Entry
0	2023-07-25 07:22:25	ID requested
⏵ 1	2024-04-01 02:24:08	announced

10.1038/S41598-024-55779-Y;

submitter keyword: Biological,Metaproteomics

Takumi Tsutaya
contact affiliation	Research Center for Integrative Evolutionary Science, The Graduate University for Advanced Studies (SOKENDAI)
contact email	tsutayatakumi@gmail.com
lab head
Yoko Uchida-Fukuhara
contact affiliation	Okayama university, Research Center for Integrative Evolutionary Science, The Graduate University for Advanced Studies (SOKENDAI)
contact email	yok.uchifukuhara423@gmail.com
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/2024/04/PXD044070

PRIDE project URI

• PRIDE
  1. PXD044070
     1. Label: PRIDE project
     2. Name: Palaeoproteomic investigation of an ancient human skeleton with abnormal deposition of dental calculus