PMID- 34638844
OWN - NLM
STAT- MEDLINE
DCOM- 20211101
LR  - 20211101
IS  - 1422-0067 (Electronic)
IS  - 1422-0067 (Linking)
VI  - 22
IP  - 19
DP  - 2021 Sep 29
TI  - Acid Stripping after Infection Improves the Detection of Viral HLA Class I 
      Natural Ligands Identified by Mass Spectrometry.
LID - 10.3390/ijms221910503 [doi]
LID - 10503
AB  - Identification of a natural human leukocyte antigen (HLA) ligandome is a key 
      element to understand the cellular immune response. Advanced high throughput mass 
      spectrometry analyses identify a relevant, but not complete, fraction of the many 
      tens of thousands of self-peptides generated by antigen processing in live cells. 
      In infected cells, in addition to this complex HLA ligandome, a minority of 
      peptides from degradation of the few proteins encoded by the viral genome are 
      also bound to HLA class I molecules. In this study, the standard 
      immunopeptidomics strategy was modified to include the classical acid stripping 
      treatment after virus infection to enrich the HLA ligandome in virus ligands. 
      Complexes of HLA-B*27:05-bound peptide pools were isolated from vaccinia virus 
      (VACV)-infected cells treated with acid stripping after virus infection. The HLA 
      class I ligandome was identified using high throughput mass spectrometry 
      analyses, yielding 37 and 51 natural peptides processed and presented untreated 
      and after acid stripping treatment VACV-infected human cells, respectively. Most 
      of these virus ligands were identified in both conditions, but exclusive VACV 
      ligands detected by mass spectrometry detected on acid stripping treatment 
      doubled the number of those identified in the untreated VACV-infected condition. 
      Theoretical binding affinity prediction of the VACV HLA-B*27:05 ligands and acute 
      antiviral T cell response characterization in the HLA transgenic mice model 
      showed no differences between HLA ligands identified under the two conditions: 
      untreated and under acid stripping condition. These findings indicated that acid 
      stripping treatment could be useful to identify HLA class I ligands from 
      virus-infected cells.
FAU - Lorente, Elena
AU  - Lorente E
AD  - Centro Nacional de Microbiologia, Instituto de Salud Carlos III, 28220 
      Majadahonda, Spain.
FAU - Marcilla, Miguel
AU  - Marcilla M
AD  - Proteomics Unit, Spanish National Biotechnology Center (CNB-CSIC), 28049 Madrid, 
      Spain.
FAU - de la Sota, Patricia G
AU  - de la Sota PG
AUID- ORCID: 0000-0001-5281-2551
AD  - Centro Nacional de Microbiologia, Instituto de Salud Carlos III, 28220 
      Majadahonda, Spain.
FAU - Quijada-Freire, Adriana
AU  - Quijada-Freire A
AD  - Centro Nacional de Microbiologia, Instituto de Salud Carlos III, 28220 
      Majadahonda, Spain.
FAU - Mir, Carmen
AU  - Mir C
AD  - Centro Nacional de Microbiologia, Instituto de Salud Carlos III, 28220 
      Majadahonda, Spain.
FAU - Lopez, Daniel
AU  - Lopez D
AUID- ORCID: 0000-0003-0268-5878
AD  - Centro Nacional de Microbiologia, Instituto de Salud Carlos III, 28220 
      Majadahonda, Spain.
LA  - eng
GR  - SAF2014-58052/Ministerio de Ciencia e Innovacion/
GR  - "Accion Estrategica en Salud" MPY 388/18/Ministerio de Ciencia e Innovacion/
PT  - Journal Article
DEP - 20210929
PL  - Switzerland
TA  - Int J Mol Sci
JT  - International journal of molecular sciences
JID - 101092791
RN  - 0 (Acids)
RN  - 0 (HLA Antigens)
RN  - 0 (Histocompatibility Antigens Class I)
RN  - 0 (Ligands)
RN  - 0 (Peptides)
RN  - 82115-62-6 (Interferon-gamma)
SB  - IM
MH  - Acids/chemistry
MH  - Animals
MH  - CD8-Positive T-Lymphocytes/immunology/metabolism/virology
MH  - Cell Line
MH  - HLA Antigens/genetics/*immunology/metabolism
MH  - Histocompatibility Antigens Class I/genetics/*immunology/metabolism
MH  - Humans
MH  - Interferon-gamma/immunology/metabolism
MH  - Ligands
MH  - Lymphocytes/*immunology/metabolism/virology
MH  - Mice, Transgenic
MH  - Peptides/immunology/metabolism
MH  - Protein Binding
MH  - Tandem Mass Spectrometry/*methods
MH  - Vaccinia virus/*immunology/physiology
PMC - PMC8508920
OTO - NOTNLM
OT  - HLA class I
OT  - immunoproteomics
OT  - ligand
OT  - peptide
OT  - virus
COIS- The authors declare no conflict of interest. The funders had no role in the 
      design of the study; in the collection, analyses, or interpretation of data; in 
      the writing of the manuscript, or in the decision to publish the results.
EDAT- 2021/10/14 06:00
MHDA- 2021/11/03 06:00
PMCR- 2021/09/29
CRDT- 2021/10/13 01:03
PHST- 2021/08/09 00:00 [received]
PHST- 2021/09/23 00:00 [revised]
PHST- 2021/09/26 00:00 [accepted]
PHST- 2021/10/13 01:03 [entrez]
PHST- 2021/10/14 06:00 [pubmed]
PHST- 2021/11/03 06:00 [medline]
PHST- 2021/09/29 00:00 [pmc-release]
AID - ijms221910503 [pii]
AID - ijms-22-10503 [pii]
AID - 10.3390/ijms221910503 [doi]
PST - epublish
SO  - Int J Mol Sci. 2021 Sep 29;22(19):10503. doi: 10.3390/ijms221910503.