Characterization of the Zebrafish T Cell Receptor Beta Locus

Overview

Journal Immunogenetics

Specialties Allergy & Immunology
Genetics

Date 2010 Jan 8

PMID 20054533

Citations 23

Authors

Nathan D Meeker

Alexandra C H Smith

J Kimble Frazer

Diana F Bradley

Lynnie A Rudner

Cynthia Love

Nikolaus S Trede

Affiliations

Soon will be listed here.

Abstract

Zebrafish (Danio rerio) has become an increasingly important model for immunological study. Its immune system is remarkably similar to that of mammals and includes both the adaptive and innate branches. Zebrafish T cells express functional T cell receptors (TCR), and all four TCR loci are present within the genome. Using 5'-rapid amplification of cDNA ends, we cloned and sequenced zebrafish TCRbeta transcripts. TCRbeta VDJ coding joints demonstrate conservation of mechanisms used by other vertebrate species to increase junctional diversity. Using the sequences obtained, along with previously published data, we comprehensively annotated the zebrafish TCRbeta locus. Overall, organization of the locus resembles that seen in mammals. There are 51 V segments, a single D segment, 27 Jbeta1 segments, a single Jbeta2 segment, and two constant regions. This description of the zebrafish TCRbeta locus has the potential to enhance immunological research in zebrafish and further our understanding of mammalian TCR repertoire generation.

Citing Articles

Macroevolution of avian T cell receptor C segments using genomic data.

Liang C, Sun L, Zhu Y, Zhao A, Liu H, He K Immunogenetics. 2023; 75(6):531-541.

PMID: 37804321 DOI: 10.1007/s00251-023-01322-8.

Evolution of T cell receptor beta loci in salmonids.

Boudinot P, Novas S, Jouneau L, Mondot S, Lefranc M, Grimholt U Front Immunol. 2023; 14:1238321.

PMID: 37649482 PMC: 10464911. DOI: 10.3389/fimmu.2023.1238321.

Origin and evolutionary malleability of T cell receptor α diversity.

Giorgetti O, OMeara C, Schorpp M, Boehm T Nature. 2023; 619(7968):193-200.

PMID: 37344590 PMC: 10322711. DOI: 10.1038/s41586-023-06218-x.

Single-cell analyses reveal early thymic progenitors and pre-B cells in zebrafish.

Rubin S, Baron C, Pessoa Rodrigues C, Duran M, Corbin A, Yang S J Exp Med. 2022; 219(9).

PMID: 35938989 PMC: 9365674. DOI: 10.1084/jem.20220038.

Tetraploid Ancestry Provided Atlantic Salmon With Two Paralogue Functional T Cell Receptor Beta Regions Whereof One Is Completely Novel.

Grimholt U, Sundaram A, Boe C, Dahle M, Lukacs M Front Immunol. 2022; 13:930312.

PMID: 35784332 PMC: 9247247. DOI: 10.3389/fimmu.2022.930312.

References

Litman G, Anderson M, RAST J . Evolution of antigen binding receptors. Annu Rev Immunol. 1999; 17:109-47. DOI: 10.1146/annurev.immunol.17.1.109. View

Partula S, de Guerra A, Fellah J, Charlemagne J . Structure and diversity of the T cell antigen receptor beta-chain in a teleost fish. J Immunol. 1995; 155(2):699-706. View

Wermenstam N, Pilstrom L . T-cell antigen receptors in Atlantic cod (Gadus morhua l.): structure, organisation and expression of TCR alpha and beta genes. Dev Comp Immunol. 2000; 25(2):117-35. DOI: 10.1016/s0145-305x(00)00049-5. View

Traver D, Herbomel P, Patton E, Murphey R, Yoder J, Litman G . The zebrafish as a model organism to study development of the immune system. Adv Immunol. 2004; 81:253-330. View

Saitou N, Nei M . The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol. 1987; 4(4):406-25. DOI: 10.1093/oxfordjournals.molbev.a040454. View

Wienholds E, Schulte-Merker S, Walderich B, Plasterk R . Target-selected inactivation of the zebrafish rag1 gene. Science. 2002; 297(5578):99-102. DOI: 10.1126/science.1071762. View

Haire R, RAST J, Litman R, Litman G . Characterization of three isotypes of immunoglobulin light chains and T-cell antigen receptor alpha in zebrafish. Immunogenetics. 2000; 51(11):915-23. DOI: 10.1007/s002510000229. View

Schorpp M, Bialecki M, Diekhoff D, Walderich B, Odenthal J, Maischein H . Conserved functions of Ikaros in vertebrate lymphocyte development: genetic evidence for distinct larval and adult phases of T cell development and two lineages of B cells in zebrafish. J Immunol. 2006; 177(4):2463-76. DOI: 10.4049/jimmunol.177.4.2463. View

Akamatsu Y, Tsurushita N, Nagawa F, Matsuoka M, Okazaki K, Imai M . Essential residues in V(D)J recombination signals. J Immunol. 1994; 153(10):4520-9. View

10.

Fischer C, Bouneau L, Ozouf-Costaz C, Crnogorac-Jurcevic T, Weissenbach J, Bernot A . Conservation of the T-cell receptor alpha/delta linkage in the teleost fish Tetraodon nigroviridis. Genomics. 2002; 79(2):241-8. DOI: 10.1006/geno.2002.6688. View

11.

Frazer J, Meeker N, Rudner L, Bradley D, Smith A, Demarest B . Heritable T-cell malignancy models established in a zebrafish phenotypic screen. Leukemia. 2009; 23(10):1825-35. PMC: 2761994. DOI: 10.1038/leu.2009.116. View

12.

RAST J, Litman G . T-cell receptor gene homologs are present in the most primitive jawed vertebrates. Proc Natl Acad Sci U S A. 1994; 91(20):9248-52. PMC: 44789. DOI: 10.1073/pnas.91.20.9248. View

13.

Meeker N, Trede N . Immunology and zebrafish: spawning new models of human disease. Dev Comp Immunol. 2008; 32(7):745-57. DOI: 10.1016/j.dci.2007.11.011. View

14.

Moss P, Bell J . Sequence analysis of the human alpha beta T-cell receptor CDR3 region. Immunogenetics. 1995; 42(1):10-8. DOI: 10.1007/BF00164982. View

15.

Basu M, Hegde M, Modak M . Synthesis of compositionally unique DNA by terminal deoxynucleotidyl transferase. Biochem Biophys Res Commun. 1983; 111(3):1105-12. DOI: 10.1016/0006-291x(83)91413-4. View

16.

Willett C, Cortes A, Zuasti A, Zapata A . Early hematopoiesis and developing lymphoid organs in the zebrafish. Dev Dyn. 1999; 214(4):323-36. DOI: 10.1002/(SICI)1097-0177(199904)214:4<323::AID-AJA5>3.0.CO;2-3. View

17.

DiBiase A, Harte R, Zhou Y, Zon L, Kent W . Piloting the zebrafish genome browser. Dev Dyn. 2005; 235(3):747-53. DOI: 10.1002/dvdy.20661. View

18.

Malissen M, McCoy C, Blanc D, Trucy J, Devaux C, FITCH F . Direct evidence for chromosomal inversion during T-cell receptor beta-gene rearrangements. Nature. 1986; 319(6048):28-33. DOI: 10.1038/319028a0. View

19.

Murray J, ONeill J, Messier T, Rivers J, Walker V, McGonagle B . V(D)J recombinase-mediated processing of coding junctions at cryptic recombination signal sequences in peripheral T cells during human development. J Immunol. 2006; 177(8):5393-404. PMC: 1937029. DOI: 10.4049/jimmunol.177.8.5393. View

20.

Danilova N, Hohman V, Sacher F, Ota T, Willett C, Steiner L . T cells and the thymus in developing zebrafish. Dev Comp Immunol. 2004; 28(7-8):755-67. DOI: 10.1016/j.dci.2003.12.003. View