PXD045412-2

PXD045412 is an original dataset announced via ProteomeXchange.

Title	Tryps-IN: A streamlined palaeoproteomics workflow enables ZooMS analysis of 10,000-year-old petrous bones from Jordan rift-valley
Description	Poor preservation of collagen in dry and/or arid environments has hindered the application of Zooarchaeology by mass spectrometry (ZooMS) analysis in many regions of the world. As a result many zooarchaeological investigations have relied exclusively on morphological assessment of fragmentary remains due to the inadequate preservation of biomolecules. The climatic conditions of Southwest Asia include extreme temperature fluctuations unconducive to preservation of proteins and DNA. We performed zooarchaeological analysis of remains from the 10,000-year-old site of Shkārat Msaied in Jordan and sub-sampled twenty-eight petrous bones, the hardest bone in the mammalian skeleton, for species identification by ZooMS. Using an unconventional and simplified extraction protocol we call Tryps-IN, in which digestion was performed without removal of the demineralising EDTA, we taxonomically identified several fragments, outperforming an established ZooMS work-flow. A subset of identifications was subsequently confirmed using liquid chromatography coupled to tandem mass spectrometry (LC-MS/MS) protein sequencing. The new methodology presented here opens the possibility of further bioarchaeological investigation of other fragmentary faunal assemblages within this region of archaeological significance.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_08:33:50.716.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Louise Le Meillour
SpeciesList	scientific name: Capra sp.; NCBI TaxID: 61294;
ModificationList	2-hydroxyproline; monohydroxylated residue; deamidated residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2023-09-15 05:10:00	ID requested
1	2023-10-19 03:53:53	announced
⏵ 2	2023-11-14 08:33:51	announced	2023-11-14: Updated project metadata.
3	2024-10-22 06:06:31	announced	2024-10-22: Updated project metadata.

Dataset with its publication pending

submitter keyword: Zoogeography

Zooarchaeology

Palaeoproteomics

MPPNB

LC-MS/MS

ZooMS

Shkārat Msaied

Alberto Taurozzi
contact affiliation	Section for GeoGenetics Globe Institute University of Copenhagen Denmark
contact email	ajtaurozzi@palaeome.org
lab head
Louise Le Meillour
contact affiliation	Section for Molecular Ecology and Evolution Globe Institute University of Copenhagen Denmark
contact email	louise@palaeome.org
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/2023/10/PXD045412

PRIDE project URI

• PRIDE
  1. PXD045412
     1. Label: PRIDE project
     2. Name: Tryps-IN: A streamlined palaeoproteomics workflow enables ZooMS analysis of 10,000-year-old petrous bones from Jordan rift-valley