Open AccessEvolution of MHC class I genes in the European badger ( Meles meles )
Author(s) -
Sin Yung Wa,
Dugdale Hannah L.,
Newman Chris,
Macdonald David W.,
Burke Terry
Publication year - 2012
Publication title -
ecology and evolution
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.17
H-Index - 63
ISSN - 2045-7758
DOI - 10.1002/ece3.285
Subject(s) - biology , pseudogene , genetics , evolutionary biology , meles , major histocompatibility complex , balancing selection , concerted evolution , lineage (genetic) , molecular evolution , natural selection , mhc class i , gene , gene duplication , phylogenetics , badger , genome , selection (genetic algorithm) , ecology , artificial intelligence , computer science
The major histocompatibility complex (MHC) plays a central role in the adaptive immune system and provides a good model with which to understand the evolutionary processes underlying functional genes. Trans‐species polymorphism and orthology are both commonly found in MHC genes; however, mammalian MHC class I genes tend to cluster by species. Concerted evolution has the potential to homogenize different loci, whereas birth‐and‐death evolution can lead to the loss of orthologs; both processes result in monophyletic groups within species. Studies investigating the evolution of MHC class I genes have been biased toward a few particular taxa and model species. We present the first study of MHC class I genes in a species from the superfamily Musteloidea. The European badger ( Meles meles ) exhibits moderate variation in MHC class I sequences when compared to other carnivores. We identified seven putatively functional sequences and nine pseudogenes from genomic (gDNA) and complementary (cDNA) DNA, signifying at least two functional class I loci. We found evidence for separate evolutionary histories of the α1 and α2/α3 domains. In the α1 domain, several sequences from different species were more closely related to each other than to sequences from the same species, resembling orthology or trans‐species polymorphism. Balancing selection and probable recombination maintain genetic diversity in the α1 domain, evidenced by the detection of positive selection and a recombination event. By comparison, two recombination breakpoints indicate that the α2/α3 domains have most likely undergone concerted evolution, where recombination has homogenized the α2/α3 domains between genes, leading to species‐specific clusters of sequences. Our findings highlight the importance of analyzing MHC domains separately.