PXD042536

PXD042536 is an original dataset announced via ProteomeXchange.

Title	Species identification of ivory and bone museum objects using minimally invasive proteomics
Description	Ivory is a highly prized material in many cultures since it can be carved into intricated designs and have a highly polished surface. Due to its popularity, the animals from which ivory can be sourced have started to come under threat. Identification of the ivory species is not only important for compliance with the Convention on International Trade in Endangered Species of Wild Fauna and Flora (CITES), it can also provide important information about the context in which the work was created. In this work, we have developed a minimally invasive workflow to remove minimal amounts of material from precious objects, and, using high-resolution mass spectrometry-based proteomics, identified the taxonomy of several ivory and bone objects from the collection of The Metropolitan Museum of Art dating from as early as 4000 B.C. We built an inhouse proteomic databases of underrepresented species based on exemplars obtained from the Mammology American Museum of Natural History collection and proposed alternative data analysis workflows for rare samples containing sparse and inconsistently preserved organic material. This is a first application demonstrating extensive and accurate ivory species identification using proteomics to unlock sequence uncertainties, e.g. Leu/Ile-discrimination.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_06:28:30.523.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Catherine Gilbert
SpeciesList	scientific name: Physeter catodon; NCBI TaxID: 9755; scientific name: Cervus elaphus hippelaphus; NCBI TaxID: 46360; scientific name: Loxodonta cyclotis; NCBI TaxID: 99490; scientific name: Bos taurus (Bovine); NCBI TaxID: 9913; scientific name: Elephas maximus indicus; NCBI TaxID: 99487; scientific name: Loxodonta africana (African elephant); NCBI TaxID: 9785; scientific name: Hippopotamus amphibius (Hippopotamus); NCBI TaxID: 9833;
ModificationList	monohydroxylated residue; deamidated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Eclipse

Revision	Datetime	Status	ChangeLog Entry
0	2023-05-30 03:52:27	ID requested
1	2024-02-04 16:59:59	announced
⏵ 2	2024-10-22 06:28:30	announced	2024-10-22: Updated project metadata.

10.1126/SCIADV.ADI9028;

submitter keyword: hippopotamus,ivory, elephant, minimally invasive

Caroline Tokarski
contact affiliation	1 Univ. Bordeaux, CNRS, Bordeaux INP, CBMN, UMR 5248, F-33600 Pessac, France 2 Bordeaux Proteome Platform, University of Bordeaux, F-33000 Bordeaux, France
contact email	caroline.tokarski@u-bordeaux.fr
lab head
Catherine Gilbert
contact affiliation	Université de Bordeaux
contact email	catherine.gilbert@u-bordeaux.fr
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/2024/02/PXD042536

PRIDE project URI

• PRIDE
  1. PXD042536
     1. Label: PRIDE project
     2. Name: Species identification of ivory and bone museum objects using minimally invasive proteomics