TY - JOUR
T1 - Characterization of the ferret TRB locus guided by V, D, J, and C gene expression analysis
AU - Gerritsen, Bram
AU - Pandit, Aridaman
AU - Zaaraoui-Boutahar, Fatiha
AU - van den Hout, Mirjam C G N
AU - van IJcken, Wilfred F J
AU - de Boer, Rob J
AU - Andeweg, Arno C
N1 - Funding Information:
BG, AA, and FZB were supported by the VIRGO consortium funded by the Netherlands Genomics Initiative and the Dutch Government (FES0908). RdB and AP were supported by the European Union Seventh Framework Programme (FP7/2007-2013) under grant agreement 317040 (QuanTI). AP was also supported by the Netherlands Organization for Scientific Research (NWO) VENI grant agreement 016.178.027.
Publisher Copyright:
© 2019, The Author(s).
Copyright:
Copyright 2020 Elsevier B.V., All rights reserved.
PY - 2020/2
Y1 - 2020/2
N2 - The domestic ferret, Mustela putorius furo, is an important mammalian animal model to study human respiratory infection. However, insufficient genomic annotation hampers detailed studies of ferret T cell responses. In this study, we analyzed the published T cell receptor beta (TRB) locus and performed high-throughput sequencing (HTS) of peripheral blood of four healthy adult ferrets to identify expressed V, D, J, and C genes. The HTS data is used as a guide to manually curate the expressed V, D, J, and C genes. The ferret locus appears to be most similar to that of the dog. Like other mammalian TRB loci, the ferret TRB locus contains a library of variable genes located upstream of two D-J-C gene clusters, followed by a (in the ferret non-functional) V gene with an inverted transcriptional orientation. All TRB genes (expressed or not) reported here have been approved by the IMGT/WHO-IUIS nomenclature committee.
AB - The domestic ferret, Mustela putorius furo, is an important mammalian animal model to study human respiratory infection. However, insufficient genomic annotation hampers detailed studies of ferret T cell responses. In this study, we analyzed the published T cell receptor beta (TRB) locus and performed high-throughput sequencing (HTS) of peripheral blood of four healthy adult ferrets to identify expressed V, D, J, and C genes. The HTS data is used as a guide to manually curate the expressed V, D, J, and C genes. The ferret locus appears to be most similar to that of the dog. Like other mammalian TRB loci, the ferret TRB locus contains a library of variable genes located upstream of two D-J-C gene clusters, followed by a (in the ferret non-functional) V gene with an inverted transcriptional orientation. All TRB genes (expressed or not) reported here have been approved by the IMGT/WHO-IUIS nomenclature committee.
KW - Animals
KW - Ferrets
KW - Gene Expression Regulation
KW - Gene Rearrangement, beta-Chain T-Cell Antigen Receptor/genetics
KW - High-Throughput Nucleotide Sequencing
KW - Receptors, Antigen, T-Cell, alpha-beta/genetics
KW - IMGT
KW - T cell receptor
KW - TRB locus
KW - Immune repertoire sequencing
KW - Comparative genomics
KW - Ferret (Mustela putorius furo)
UR - https://www.scopus.com/pages/publications/85076416770
U2 - 10.1007/s00251-019-01142-9
DO - 10.1007/s00251-019-01142-9
M3 - Review article
C2 - 31797007
SN - 0093-7711
VL - 72
SP - 101
EP - 108
JO - Immunogenetics
JF - Immunogenetics
IS - 1-2
ER -