PXD002673

PXD002673 is an original dataset announced via ProteomeXchange.

Title	The challenge of identifying tuberculosis proteins in archaeological tissues
Description	Following the report of Mycobacterium tuberculosis proteins derived from archaeological bone by Boros-Major et al. (2011), we attempted to recover M. tuberculosis proteins in mummified lung tissues from which aDNA success had already been reported. Using a filter-aided sample preparation protocol modified for ancient samples we applied shotgun proteomics to seven samples of mummified lung, chest and pleura tissues. However, we only identified four peptides with unique matches to the Mycobacterium tuberculosis complex, none of which were unique to M. tuberculosis, although we did identify a range of human proteins and non-mycobacterial bacterial proteins. In light of these limited results, we question the validity of the peptide mass fingerprint (PMF) approach presented by Boros-Major et al. (2011), especially due to its similarity to that of human collagen, the dominant protein in the tissue under investigation. We explore the challenges of using proteomic approaches to detect M. tuberculosis, and propose that, given the contentious outcomes that have plagued ancient protein research in the past, the susceptibility of ancient material to modern contamination, and the degradation inherent in archaeological materials, caution is needed in the acquisition, analysis and reporting of proteomic data from such material.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_06:44:26.508.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD002673
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Jessica Hendy
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	Deamidated; Oxidation; Acetyl; Carbamidomethyl; Gln->pyro-Glu
Instrument	maXis

Revision	Datetime	Status	ChangeLog Entry
0	2015-08-05 05:56:40	ID requested
1	2016-02-19 06:52:07	announced
2	2017-07-20 03:53:44	announced	Updated publication reference for DOI(s): 10.1016/j.jas.2016.01.003.
⏵ 3	2023-11-14 06:44:26	announced	2023-11-14: Updated project metadata.

10.6019/PXD002673;

curator keyword: Biomedical

submitter keyword: Human, Tuberculosis, Mummified Tissue, LC-MS/MS

Matthew Collins
contact affiliation	BioArCh, University of York, UK
contact email	matthew.collins@york.ac.uk
lab head
Jessica Hendy
contact affiliation	University of York
contact email	jessica.hendy@york.ac.uk
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD002673
     1. Label: PRIDE project
     2. Name: The challenge of identifying tuberculosis proteins in archaeological tissues