ArticleImmunogenetics2014
Genomic V exons from whole genome shotgun data in reptiles.
Article in Immunogenetics, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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Who cites it
13 citing papers in PubMed, 31 citations in OpenAlex.
- Immunoglobulin genetics of a model squamate reptile, Tiliqua rugosa.Immunogenetics · 2025Article
- From benchmarking alignment of genome assemblies to IMGT annotation: the paradigm of the bovine Bos taurus T cell receptor (TRG) locus.BMC genomics · 2025Article
- CloseRead: a tool for assessing assembly errors in immunoglobulin loci applied to vertebrate long-read genome assemblies.Genome biology · 2025Article
- Squamate reptiles may have compensated for the lack of γδTCR with a duplication of the TRB locus.Frontiers in immunology · 2024Article
- Comparison of Reptilian Genomes Reveals Deletions Associated with the Natural Loss of γδ T Cells in Squamates.Journal of immunology (Baltimore, Md. : 1950) · 2022Article
- Inter- and intraspecies comparison of phylogenetic fingerprints and sequence diversity of immunoglobulin variable genes.Immunogenetics · 2020Article
- Iterative Variable Gene Discovery from Whole Genome Sequencing with a Bootstrapped Multiresolution Algorithm.Computational and mathematical methods in medicine · 2019Article
- Tracing Antibody Repertoire Evolution by Systems Phylogeny.Frontiers in immunology · 2018Review
- A comprehensive analysis of the germline and expressed TCR repertoire in White Peking duck.Scientific reports · 2017Article
- Article
- Coevolution of T-cell receptors with MHC and non-MHC ligands.Immunological reviews · 2015Review
- Evolution of V genes from the TRV loci of mammals.Immunogenetics · 2015Article
- V genes in primates from whole genome sequencing data.Immunogenetics · 2015Article
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Authors and funding
5 authors at 3 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Reptiles and mammals diverged over 300 million years ago, creating two parallel evolutionary lineages amongst terrestrial vertebrates. In reptiles, two main evolutionary lines emerged: one gave rise to Squamata, while the other gave rise to Testudines, Crocodylia, and Aves. In this study, we determined the genomic variable (V) exons from whole genome shotgun sequencing (WGS) data in reptiles corresponding to the three main immunoglobulin (IG) loci and the four main T cell receptor (TR) loci. We show that Squamata lack the TRG and TRD genes, and snakes lack the IGKV genes. In representative species of Testudines and Crocodylia, the seven major IG and TR loci are maintained. As in mammals, genes of the IG loci can be grouped into well-defined IMGT clans through a multi-species phylogenetic analysis. We show that the reptilian IGHV and IGLV genes are distributed amongst the established mammalian clans, while their IGKV genes are found within a single clan, nearly exclusive from the mammalian sequences. The reptilian and mammalian TRAV genes cluster into six common evolutionary clades (since IMGT clans have not been defined for TR). In contrast, the reptilian TRBV genes cluster into three clades, which have few mammalian members. In this locus, the V exon sequences from mammals appear to have undergone different evolutionary diversification processes that occurred outside these shared reptilian clans. These sequences can be obtained in a freely available public repository (http://vgenerepertoire.org).
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