Comparative MHC nomenclature: report from the ISAG/IUIS-VIC committee 2018
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Significant progress has been made over the last decade in defining major histocompatibility complex (MHC) diversity at the nucleotide, allele, haplotype, diplotype, and population levels in many non-human species. Much of this progress has been driven by the increased availability and reduced costs associated with nucleotide sequencing technologies. This report provides an update on the activities of the comparative MHC nomenclature committee which is a standing committee of both the International Society for Animal Genetics (ISAG) and the International Union of Immunological Societies (IUIS) where it operates under the umbrella of the Veterinary Immunology Committee (VIC). A previous report from this committee in 2006 defined the role of the committee in providing guidance in the development of a standardized nomenclature for genes and alleles at MHC loci in non-human species. It described the establishment of the Immuno Polymorphism Database, IPD-MHC, which continues to provide public access to high quality MHC sequence data across a range of species. In this report, guidelines for the continued development of a universal MHC nomenclature framework are described, summarizing the continued development of each species section within the IPD-MHC project.
KeywordsComparative MHC Nomenclature IPD-MHC
The support of all those who provide their time to assign official names to MHC alleles across many different species is acknowledged. The Comparative MHC Nomenclature Committee would also like to acknowledge the Biotechnology and Biological Sciences Research Council (BBSRC) for supporting the maintenance and development of the IPD-MHC through grant BB/M011488/1 and IUIS-VIC for supporting the comparative MHC workshops at ISAG and IVIS meetings.
KB receives funding from the Scottish Government’s strategic research program and the European Union’s Horizon 2020 research and innovation program under grant agreement No. 731014. JAH and GM were also supported by the BBSRC through projects BBS/E/I/00001710, BBS/E/I/00007030, BBS/E/I/00007038, and BBS/E/I/00007039.
- de Groot NG, Otting N, Robinson J, Blancher A, Lafont BAP, Marsh SGE, O'Connor DH, Shiina T, Walter L, Watkins DI, Bontrop RE (2012) Nomenclature report on the major histocompatibility complex genes and alleles of Great Ape, Old and New World monkey species. Immunogenetics 64:615–631CrossRefGoogle Scholar
- Klein J (1986) Natural history of the major histocompatibility complex. Published by J Wiley and Sons, New YorkGoogle Scholar
- Maccari G, Robinson J, Ballingall K, Guethlein L, Grimholt U, Kaufmann J, Ho C-K, de Groot N, Flicek P, Bontrop R, Hammond J, Marsh S (2017) IPD-MHC 2.0: an improved inter-species database for the study of the major histocompatibility complex. Nucleic Acids Res 45(Database issue):D860–D864. https://doi.org/10.1093/nar/gkw1050 CrossRefPubMedGoogle Scholar
- Maccari G, Robinson J, Bontrop RE, Otting N, de Groot NG, Ho C-S, Ballingall KT, Marsh SGE, Hammond JA (2018) IPD-MHC: nomenclature requirements for the non-human major histocompatibility complex in the next-generation sequencing era. Immunogenetics. https://doi.org/10.1007/s00251-018-1072-4
- Marsh SGE, Albert ED, Bodmer WF, Bontrop RE, Dupont B, Erlich HA, Fernández-Viña M, Geraghty DE, Holdsworth R, Hurley CK, Lau M, Lee KW, Mach B, Maiers M, Mayr WR, Müller CR, Parham P, Petersdorf EW, Sasazuki T, Strominger JL, Svejgaard A, Terasaki PI, Tiercy JM, Trowsdale J (2010) Nomenclature for factors of the HLA system, 2010. Tissue Antigens 75:291–455CrossRefGoogle Scholar
- Shiina T, Dijkstra JM, Shimizu S, Watanabe A, Yanagiya K, Kiryu I, Fujiwara A, Nishida-Umehara C, Kaba Y, Hirono I et al (2005) Interchromosomal duplication of major histocompatibility complex class I regions in rainbow trout (Oncorhynchus mykiss), a species with a presumably recent tetraploid ancestry. Immunogenetics 56:878–893CrossRefGoogle Scholar
- WHO Nomenclature Committee (1968) Nomenclature for factors of the HL-a system. Bull World Health Organ 39:483–486Google Scholar