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dc.contributor.author
Pedersen, Lasse Eggers
dc.contributor.author
Rasmussen, Michael
dc.contributor.author
Harndahl, Mikkel
dc.contributor.author
Nielsen, Morten
dc.contributor.author
Buus, Søren
dc.contributor.author
Jungersen, Gregers
dc.date.available
2018-06-21T12:36:52Z
dc.date.issued
2016-02
dc.identifier.citation
Pedersen, Lasse Eggers; Rasmussen, Michael; Harndahl, Mikkel; Nielsen, Morten; Buus, Søren; et al.; A combined prediction strategy increases identification of peptides bound with high affinity and stability to porcine MHC class I molecules SLA-1*04:01, SLA-2*04:01, and SLA-3*04:01; Springer; Immunogenetics; 68; 2; 2-2016; 157-165
dc.identifier.issn
0093-7711
dc.identifier.uri
http://hdl.handle.net/11336/49498
dc.description.abstract
Affinity and stability of peptides bound by major histocompatibility complex (MHC) class I molecules are important factors in presentation of peptides to cytotoxic T lymphocytes (CTLs). In silico prediction methods of peptide-MHC binding followed by experimental analysis of peptide-MHC interactions constitute an attractive protocol to select target peptides from the vast pool of viral proteome peptides. We have earlier reported the peptide binding motif of the porcine MHC-I molecules SLA-1*04:01 and SLA-2*04:01, identified by an ELISA affinity-based positional scanning combinatorial peptide library (PSCPL) approach. Here, we report the peptide binding motif of SLA-3*04:01 and combine two prediction methods and analysis of both peptide binding affinity and stability of peptide-MHC complexes to improve rational peptide selection. Using a peptide prediction strategy combining PSCPL binding matrices and in silico prediction algorithms (NetMHCpan), peptide ligands from a repository of 8900 peptides were predicted for binding to SLA-1*04:01, SLA-2*04:01, and SLA-3*04:01 and validated by affinity and stability assays. From the pool of predicted peptides for SLA-1*04:01, SLA-2*04:01, and SLA-3*04:01, a total of 71, 28, and 38 % were binders with affinities below 500 nM, respectively. Comparison of peptide-SLA binding affinity and complex stability showed that peptides of high affinity generally, but not always, produce complexes of high stability. In conclusion, we demonstrate how state-of-the-art prediction and in vitro immunology tools in combination can be used for accurate selection of peptides for MHC class I binding, hence providing an expansion of the field of peptide-MHC analysis also to include pigs as a livestock experimental model.
dc.format
application/pdf
dc.language.iso
eng
dc.publisher
Springer
dc.rights
info:eu-repo/semantics/restrictedAccess
dc.rights.uri
https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
dc.subject
Affinity
dc.subject
Mhc
dc.subject
Peptide Binding Prediction
dc.subject
Stability
dc.subject
Swine
dc.subject.classification
Salud Ocupacional
dc.subject.classification
Ciencias de la Salud
dc.subject.classification
CIENCIAS MÉDICAS Y DE LA SALUD
dc.title
A combined prediction strategy increases identification of peptides bound with high affinity and stability to porcine MHC class I molecules SLA-1*04:01, SLA-2*04:01, and SLA-3*04:01
dc.type
info:eu-repo/semantics/article
dc.type
info:ar-repo/semantics/artículo
dc.type
info:eu-repo/semantics/publishedVersion
dc.date.updated
2018-06-19T16:52:34Z
dc.journal.volume
68
dc.journal.number
2
dc.journal.pagination
157-165
dc.journal.pais
Alemania
dc.journal.ciudad
Berlin
dc.description.fil
Fil: Pedersen, Lasse Eggers. Technical University of Denmark; Dinamarca
dc.description.fil
Fil: Rasmussen, Michael. Universidad de Copenhagen; Dinamarca
dc.description.fil
Fil: Harndahl, Mikkel. Universidad de Copenhagen; Dinamarca
dc.description.fil
Fil: Nielsen, Morten. Technical University of Denmark; Dinamarca. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - La Plata. Instituto de Investigaciones Biotecnológicas. Instituto de Investigaciones Biotecnológicas (subsede Chascomús) | Universidad Nacional de San Martín. Instituto de Investigaciones Biotecnológicas. Instituto de Investigaciones Biotecnológicas (subsede Chascomús); Argentina
dc.description.fil
Fil: Buus, Søren. Universidad de Copenhagen; Dinamarca
dc.description.fil
Fil: Jungersen, Gregers. Technical University of Denmark; Dinamarca
dc.journal.title
Immunogenetics
dc.relation.alternativeid
info:eu-repo/semantics/altIdentifier/doi/https://dx.doi.org/10.1007/s00251-015-0883-9
dc.relation.alternativeid
info:eu-repo/semantics/altIdentifier/url/https://link.springer.com/article/10.1007%2Fs00251-015-0883-9