Cloning, sequencing, and polymorphism analysis of novel classical MHC class I alleles in northern pig-tailed macaques (Macaca leonina)
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- 作者：Xiao-Dong Lian ; Xi-He Zhang ; Zheng-Xi Dai ; Yong-Tang Zheng
- 关键词：Northern pig ; tailed macaque ; Macaca leonina ; MHC class I ; AIDS model
- 刊名：Immunogenetics
- 出版年：2016
- 出版时间：April 2016
- 年：2016
- 卷：68
- 期：4
- 页码：261-274
- 全文大小：1,344 KB
- 参考文献：Crooks GE, Hon G, Chandonia JM et al (2004) WebLogo: a sequence logo generator. Genome Res 14:1188–1190CrossRef PubMed PubMedCentral
Daza-Vamenta R, Glusman G, Rowen L et al (2004) Genetic divergence of the rhesus macaque major histocompatibility complex. Genome Res 14(8):1501–1515CrossRef PubMed PubMedCentral
de Groot NG, Otting N, Robinson J et al (2012) Nomenclature report on the major histocompatibility complex genes and alleles of great ape, Old and New World monkey species. Immunogenetics 64:615–631CrossRef PubMed PubMedCentral
Gauduin MC, Glickman RL, Means R et al (1998) Inhibition of simian immunodeficiency virus (SIV) replication by CD8+ T lymphocytes from macaques immunized with live attenuated SIV. J Virol 72:6315–6324PubMed PubMedCentral
Gooneratne SL, Alinejad-Rokny H, Ebrahimi D et al (2014) Linking pig-tailed macaque major histocompatibility complex class I haplotypes and cytotoxic T lymphocyte escape mutations in simian immunodeficiency virus infection. J Virol 88:14310–14325CrossRef PubMed PubMedCentral
Groves C (2001) Primate taxonomy. Smithsonian Institution, Washington DC
Karl JA, Wiseman RW, Campbell KJ et al (2008) Identification of MHC class I sequences in Chinese-origin rhesus macaques. Immunogenetics 60:37–46CrossRef PubMed PubMedCentral
Karl JA, Heimbruch KE, Vriezen CE et al (2014) Survey of major histocompatibility complex class II diversity in pig-tailed macaques. Immunogenetics 66:613–623CrossRef PubMed PubMedCentral
Kent SJ, Woodward A, Zhao A (1997) Human immunodeficiency virus type 1 (HIV-1)-specific T cell responses correlate with control of acute HIV-1 infection in macaques. J Infect Dis 176:1188–1197CrossRef PubMed
Kimura M (1980) A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16:111–120CrossRef PubMed
Klein J, Bontrop RE, Dawkins RL et al (1990) Nomenclature for the major histocompatibility complexes of different species: a proposal. Immunogenetics 31:217–219PubMed
Kuang YQ, Tang X, Liu FL et al (2009) Genotyping of TRIM5 locus in northern pig-tailed macaques (Macaca leonina), a primate species susceptible to human immunodeficiency virus type 1 infection. Retrovirology 6:58CrossRef PubMed PubMedCentral
Lafont BA, Buckler-White A, Plishka R et al (2003) Characterization of pig-tailed macaque classical MHC class I genes: implications for MHC evolution and antigen presentation in macaques. J Immunol 171:875–885CrossRef PubMed
Lafont BA, McGraw CM, Stukes SA et al (2007) The locus encoding an oligomorphic family of MHC-A alleles (Mane-A*06/Mamu-A*05) is present at high frequency in several macaque species. Immunogenetics 59:211–223CrossRef PubMed
Lee N, Llano M, Carretero M et al (1998) HLA-E is a major ligand for the natural killer inhibitory receptor CD94/NKG2A. Proc Natl Acad Sci U S A 95:5199–5204CrossRef PubMed PubMedCentral
Lei AH, Pang W, Zhang GH et al (2013) Use and research of pigtailed macaques in nonhuman primate HIV/AIDS models. Zool Res 34:77–78CrossRef PubMed
Lei AH, Zhang GH, Tian RR et al (2014) Replication potentials of HIV-1/HSIV in PBMCs from northern pig-tailed macaque (Macaca leonina). Zool Res 35:186–195PubMed
Liao CH, Kuang YQ, Liu HL et al (2007) A novel fusion gene, TRIM5-cyclophilin A in the pig-tailed macaque determines its susceptibility to HIV-1 infection. AIDS 21:S19–S26CrossRef PubMed
Librado P, Rozas J (2009) DnaSP v5: a software for comprehensive analysis of DNA polymorphism data. Bioinformatics 25:1451–1452CrossRef PubMed
Malaivijitnond S, Arsaithamkul V, Tanaka H et al (2012) Boundary zone between northern and southern pig-tailed macaques and their morphological differences. Primates 53:377–389CrossRef PubMed
Martin MP, Carrington M (2013) Immunogenetics of HIV disease. Immunol Rev 254:245–264CrossRef PubMed PubMedCentral
Miller JD, Weber DA, Ibegbu C et al (2003) Analysis of HLA-E peptide-binding specificity and contact residues in bound peptide required for recognition by CD94/NKG2. J Immunol 171:1369–1375CrossRef PubMed
Mothé BR, Sidney J, Dzuris JL et al (2002) Characterization of the peptide-binding specificity of Mamu-B*17 and identification of Mamu-B*17-restricted epitopes derived from simian immunodeficiency virus proteins. J Immunol 169:210–219CrossRef PubMed
Nei M, Kumar S (2000) Molecular evolution and phylogenetics. Oxford University Press
Nielson R, Yang Z (1998) Likelihood models for detecting positively selected amino acid sites and applications to the HIV-1 envelope gene. Genetics 148:929–936
Ouyang D, Xu L, Dai Z et al (2008) Identification of major histocompatibility complex class I alleles in Chinese rhesus macaques. Acta Biochim Biophys Sin 40:919–927CrossRef PubMed
Pal R, Venzon D, Letvin NL et al (2002) ALVAC-SIV-gag-pol-env-based vaccination and macaque major histocompatibility complex class I (A* 01) delay simian immunodeficiency virus SIVmac-induced immunodeficiency. J Virol 76(1):292–302CrossRef PubMed PubMedCentral
Pang W, Lv LB, Wang Y et al (2013) Measurement and analysis of hematology and blood chemistry parameters in northern pig-tailed macaques (Macaca leonina). Zool Res 34:89–96CrossRef PubMed
Pratt BF, O’Connor DH, Lafont BAP et al (2006) MHC class I allele frequencies in pigtail macaques of diverse origin. Immunogenetics 58:995–1001CrossRef PubMed
Robinson J, Halliwell JA, McWilliam H et al (2013) IPD—the immuno polymorphism database. Nucleic Acids Res 41:D1234–D1240CrossRef PubMed PubMedCentral
Saito Y, Naruse TK, Akari H et al (2012) Diversity of MHC class I haplotypes in cynomolgus macaques. Immunogenetics 64:131–141CrossRef PubMed
Saitou N, Nei M (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425PubMed
Sauermann U, Siddiqui R, Suh YS et al (2008) Mhc class I haplotypes associated with survival time in simian immunodeficiency virus (SIV)-infected rhesus macaques. Genes Immun 9:69–80CrossRef PubMed
Smith MZ, Dale CJ, De Rose R et al (2005a) Analysis of pigtail macaque major histocompatibility complex class I molecules presenting immunodominant simian immunodeficiency virus epitopes. J Virol 79:684–695CrossRef PubMed PubMedCentral
Smith MZ, Fernandez CS, Chung A et al (2005b) The pigtail macaque MHC class I allele Mane-A*10 presents an immunodominant SIV Gag epitope: identification, tetramer development and implications of immune escape and reversion. J Med Primatol 34:282–293CrossRef PubMed
Tamura K, Stecher G, Peterson D et al (2013) MEGA6: Molecular Evolutionary Genetics Analysis version 6.0. Mol Biol Evol 30:2725–2729CrossRef PubMed PubMedCentral
Wu J, Bassinger S, Montoya GD et al (2008) Allelic diversity within the high frequency Mamu-A2*05/Mane-A2*05 (Mane-A*06)/Mafa-A2*05 family of macaque MHC-A loci. Tissue Antigens 72:29–38CrossRef PubMed PubMedCentral
Yan X, Li A, Zeng L et al (2013) Identification of MHC class I sequences in four species of Macaca of China. Immunogenetics 65:851–859CrossRef PubMed
Yang Z (2007) PAML 4: phylogenetic analysis by maximum likelihood. Mol Biol Evol 24:1586–1591CrossRef PubMed
Yant LJ, Friedrich TC, Johnson RC et al (2006) The high-frequency major histocompatibility complex class I allele Mamu-B*17 is associated with control of simian immunodeficiency virus SIVmac239 replication. J Virol 80:5074–5077CrossRef PubMed PubMedCentral
Zhang XL, Wei P, De-Yao D et al (2014) Analysis of immunoglobulin, complements and CRP levels in serum of captive northern pig-tailed macaques (Macaca leonina). Zool Res 35:196–203PubMed
Zheng HY, Zhang MX, Zhang LT et al (2014) Flow cytometric characterizations of leukocyte subpopulations in the peripheral blood of northern pig-tailed macaques (Macaca leonina). Zool Res 35:465–473PubMed - 作者单位：Xiao-Dong Lian (1) (2)
Xi-He Zhang (1) (2)
Zheng-Xi Dai (1)
Yong-Tang Zheng (1)
1. Key Laboratory of Animal Models and Human Disease Mechanisms of Chinese Academy of Sciences and Yunnan Province, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, 650223, China
2. University of Chinese Academy of Sciences, Beijing, 100049, China - 刊物类别：Biomedical and Life Sciences
- 刊物主题：Biomedicine
Immunology
Allergology
Cell Biology - 出版者：Springer Berlin / Heidelberg
- ISSN：1432-1211
文摘
The northern pig-tailed macaque (Macaca leonina) has been confirmed to be an independent species from the pig-tailed macaque group of Old World monkey. We have previously reported that the northern pig-tailed macaques were also susceptible to HIV-1. Here, to make this animal a potential HIV/AIDS model and to discover the mechanism of virus control, we attempted to assess the role of major histocompatibility complex (MHC) class I-restricted immune responses to HIV-1 infection, which was associated with viral replication and disease progression. As an initial step, we first cloned and characterized the classical MHC class I gene of northern pig-tailed macaques. In this study, we identified 39 MHC class I alleles including 17 MHC-A and 22 MHC-B alleles. Out of these identified alleles, 30 were novel and 9 were identical to alleles previously reported from other macaque species. The MHC-A and MHC-B loci were both duplicates as rhesus macaques and southern pig-tailed macaques. In addition, we also detected the patterns of positive selection in northern pig-tailed macaques and revealed the existence of balance selection with 20 positive selection sites in the peptide binding region. The analysis of B and F peptide binding pockets in northern and southern pig-tailed macaques and rhesus macaques suggested that they were likely to share a few common peptides to present. Thus, this study provides important MHC immunogenetics information and adds values to northern pig-tailed macaques as a promising HIV/AIDS model.