PXD005021-1

PXD005021 is an original dataset announced via ProteomeXchange.

Title	Correlation between serological, proteomic and genomic methods for the determination of the polymorphism of the human immunoglobulin heavy chain
Description	In countries where prenatal care is rare and infections often undiagnosed in pregnant women, the neonatal diagnosis of congenital infections, namely parasitic, is crucial for avoiding acute disease and increasing the effectiveness of treatments administered early. To overcome implementation and/or interpretation difficulties of current techniques, a proteomic approach has been patented in our laboratory. It exploits the individual amino acid polymorphism of the CH2 and CH3-CHS from the heavy gamma chain of the immunoglobulin G (IgG), and aims at distinguishing maternal from fetal IgGs in newborns serum samples. The purpose of the study was to bring a molecular validation of these proteomic results by the sequencing of encoding DNA fragments. Ten individual samples (DNA and sera) were selected on the basis of their Gm (gamma marker) allotype polymorphism in order to cover the main immunoglobulin heavy gamma (IGHG) gene diversity. Gm allotypes, reflecting part of this diversity, were determined by a serological method. The IGH locus comprises four functional IGHG genes totalizing 34 alleles referenced in the IMGT® IMGT/GENE-DB database. These genes are at the origin of the four IgG subclasses. The study focused on the nucleotide polymorphism of the CH2 and CH3-CHS constant region. Despite strong sequence homology, four pairs of specific gene amplification primers were designed. Additional primers were identified to perform the subsequent sequencing. The nucleotide sequences obtained were checked for their assignment to a specific IGHG gene. IGHG alleles were then deduced using a home-made decision tree reading of nucleotide sequences. Identical results were found at 95% between IGHG amino acid (AA) alleles determined by mass spectrometry and those deduced from genomics. These results validate the proteomic approach which could be used for a mother-and-child differential IGHG detection in a context of suspicion of congenital infection.
HostingRepository	PRIDE
AnnounceDate	2017-03-13
AnnouncementXML	Submission_2017-03-13_02:32:09.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	François GUILLONNEAU
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2016-09-22 05:57:19	ID requested
⏵ 1	2017-03-13 02:32:11	announced
2	2017-03-14 02:17:02	announced	Updated project metadata.
3	2017-10-24 04:05:04	announced	Updated project metadata.
4	2024-10-22 04:32:57	announced	2024-10-22: Updated project metadata.

Dambrun M, Dechavanne C, Emmanuel A, Aussenac F, Leduc M, Giangrande C, Vinh J, Dugoujon JM, Lefranc MP, Guillonneau F, Migot-Nabias F, Human Immunoglobulin Heavy Gamma Chain Polymorphisms: Molecular Confirmation Of Proteomic Assessment. Mol Cell Proteomics, 16(5):824-839(2017) [pubmed]

curator keyword: Biological, Biomedical

submitter keyword: Allotype, allele, IgG, Fc fragment, IGHG, IMGT, mass spectrometry, newborn, parasitic infection, serological diagnosis

Florence MIGOT-NABIAS
contact affiliation	UMR 216 “Mère et enfant face aux infections tropicales” Institut de Recherche pour le Développement / Université Paris Descartes, Faculté de Pharmacie, Paris, France.
contact email	florence.migot-nabias@ird.fr
lab head
François GUILLONNEAU
contact affiliation	3P5 Université Paris Descartes
contact email	francois.guillonneau@parisdescartes.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/2017/03/PXD005021

PRIDE project URI

• PRIDE
  1. PXD005021
     1. Label: PRIDE project
     2. Name: Correlation between serological, proteomic and genomic methods for the determination of the polymorphism of the human immunoglobulin heavy chain