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Updated: Aug 6, 2026

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Examination of Thymic Positive and Negative Selection by Flow Cytometry
Published on: October 8, 2012
Positive selection of an H2-M3 restricted T cell receptor
R E Berg1, M F Princiotta, S Irion
1Department of Medicine, National Jewish Medical and Research Center, Denver, Colorado 80206, USA.
Immunity
|August 6, 1999
Summary
This study identifies a specific peptide from NADH dehydrogenase subunit 1 (ND1) as the physiological ligand driving T cell receptor (TCR) positive selection. This finding clarifies the role of MHC-bound peptides in T cell development, even at high epitope densities.
Area of Science:
- Immunology
- Molecular Biology
- T cell biology
Background:
- Positive selection of thymocytes ensures T cell antigen receptors (TCRs) recognize self-major histocompatibility complex (MHC) molecules.
- The precise role of MHC-bound peptides in this crucial selection process remains debated.
- Major histocompatibility complex class Ib (MHC Ib) molecules present peptides distinct from classical MHC class I/II molecules.
Purpose of the Study:
- To identify the specific peptide ligand responsible for positive selection mediated by the MHC class Ib molecule H2-M3.
- To investigate the characteristics of this peptide ligand and its implications for T cell development and peripheral tolerance.
- To explore the impact of epitope density on the promiscuity of positive selection.
Main Methods:
- Generation of a TCR transgenic mouse model with a TCR specific for the H2-M3 molecule.
- Characterization of H2-M3 binding peptides using the established transgenic system.
- Identification of a specific peptide derived from NADH dehydrogenase subunit 1 (ND1) as the physiological ligand.
Main Results:
- H2-M3 was confirmed as the positively selecting MHC molecule.
- A unique ND1-derived peptide was identified as the physiological ligand for positive selection.
- This peptide ligand exhibits no obvious sequence homology to its cognate peptide and is ubiquitously expressed.
- Despite ubiquitous expression, the ND1 peptide does not impair peripheral T cell function.
- High epitope densities were observed to induce promiscuous positive selection.
Conclusions:
- The study elucidates a specific peptide ligand (ND1-derived) for positive selection mediated by H2-M3, resolving a long-standing controversy regarding peptide involvement.
- The findings highlight the specificity of T cell selection, even with ubiquitously expressed ligands, and suggest mechanisms for maintaining peripheral tolerance.
- The observation that high epitope densities lead to promiscuous selection provides new insights into the regulation of T cell development and potential autoimmunity.

