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Evolution of T cell receptor beta loci in salmonids

T-cell mediated immunity relies on a vast array of antigen specific T cell receptors (TR). Characterizing the structure of TR loci is essential to study the diversity and composition of T cell responses in vertebrate species. The lack of good-quality genome assemblies, and the difficulty to perform...

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Autores principales: Boudinot, Pierre, Novas, Samuel, Jouneau, Luc, Mondot, Stanislas, Lefranc, Marie-Paule, Grimholt, Unni, Magadán, Susana
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10464911/
https://www.ncbi.nlm.nih.gov/pubmed/37649482
http://dx.doi.org/10.3389/fimmu.2023.1238321
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author Boudinot, Pierre
Novas, Samuel
Jouneau, Luc
Mondot, Stanislas
Lefranc, Marie-Paule
Grimholt, Unni
Magadán, Susana
author_facet Boudinot, Pierre
Novas, Samuel
Jouneau, Luc
Mondot, Stanislas
Lefranc, Marie-Paule
Grimholt, Unni
Magadán, Susana
author_sort Boudinot, Pierre
collection PubMed
description T-cell mediated immunity relies on a vast array of antigen specific T cell receptors (TR). Characterizing the structure of TR loci is essential to study the diversity and composition of T cell responses in vertebrate species. The lack of good-quality genome assemblies, and the difficulty to perform a reliably mapping of multiple highly similar TR sequences, have hindered the study of these loci in non-model organisms. High-quality genome assemblies are now available for the two main genera of Salmonids, Salmo and Oncorhynchus. We present here a full description and annotation of the TRB loci located on chromosomes 19 and 25 of rainbow trout (Oncorhynchus mykiss). To get insight about variations of the structure and composition of TRB locus across salmonids, we compared rainbow trout TRB loci with other salmonid species and confirmed that the basic structure of salmonid TRB locus is a double set of two TRBV-D-J-C loci in opposite orientation on two different chromosomes. Our data shed light on the evolution of TRB loci in Salmonids after their whole genome duplication (WGD). We established a coherent nomenclature of salmonid TRB loci based on comprehensive annotation. Our work provides a fundamental basis for monitoring salmonid T cell responses by TRB repertoire sequencing.
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spelling pubmed-104649112023-08-30 Evolution of T cell receptor beta loci in salmonids Boudinot, Pierre Novas, Samuel Jouneau, Luc Mondot, Stanislas Lefranc, Marie-Paule Grimholt, Unni Magadán, Susana Front Immunol Immunology T-cell mediated immunity relies on a vast array of antigen specific T cell receptors (TR). Characterizing the structure of TR loci is essential to study the diversity and composition of T cell responses in vertebrate species. The lack of good-quality genome assemblies, and the difficulty to perform a reliably mapping of multiple highly similar TR sequences, have hindered the study of these loci in non-model organisms. High-quality genome assemblies are now available for the two main genera of Salmonids, Salmo and Oncorhynchus. We present here a full description and annotation of the TRB loci located on chromosomes 19 and 25 of rainbow trout (Oncorhynchus mykiss). To get insight about variations of the structure and composition of TRB locus across salmonids, we compared rainbow trout TRB loci with other salmonid species and confirmed that the basic structure of salmonid TRB locus is a double set of two TRBV-D-J-C loci in opposite orientation on two different chromosomes. Our data shed light on the evolution of TRB loci in Salmonids after their whole genome duplication (WGD). We established a coherent nomenclature of salmonid TRB loci based on comprehensive annotation. Our work provides a fundamental basis for monitoring salmonid T cell responses by TRB repertoire sequencing. Frontiers Media S.A. 2023-08-15 /pmc/articles/PMC10464911/ /pubmed/37649482 http://dx.doi.org/10.3389/fimmu.2023.1238321 Text en Copyright © 2023 Boudinot, Novas, Jouneau, Mondot, Lefranc, Grimholt and Magadán https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Immunology
Boudinot, Pierre
Novas, Samuel
Jouneau, Luc
Mondot, Stanislas
Lefranc, Marie-Paule
Grimholt, Unni
Magadán, Susana
Evolution of T cell receptor beta loci in salmonids
title Evolution of T cell receptor beta loci in salmonids
title_full Evolution of T cell receptor beta loci in salmonids
title_fullStr Evolution of T cell receptor beta loci in salmonids
title_full_unstemmed Evolution of T cell receptor beta loci in salmonids
title_short Evolution of T cell receptor beta loci in salmonids
title_sort evolution of t cell receptor beta loci in salmonids
topic Immunology
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10464911/
https://www.ncbi.nlm.nih.gov/pubmed/37649482
http://dx.doi.org/10.3389/fimmu.2023.1238321
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