Table of Contents |
guest 2025-06-22 |
Here are links to the primer and probe sets used for macaque genotyping. For more information, please see individual protocols.
PCR-SSP primers for 29 common Indian rhesus macaque MHC class I alleles
| Allele | Primer Sequence |
Dil. Conc. | IC Conc. | Betaine | # specificities | |
| A*01 | 5' | GGG CGG GCT CTC ACT CCA TGA A |
0.75 μM | 0.3 μM | 6 | |
| 3' | TCC GCC GCC TCC CAC TTG |
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| A*02 | 5' | GGG GCC CTG GCC CTG ACT |
0.5 μM | 0.5 μM | 500 mM | 1 |
| 3' | CTC GCC CTC CAG GTA GGT | |||||
| A*04 | 5' |
TGG GAG GCG GCG GGT GT |
0.5 μM | 2 | ||
| 3' |
GCT CTT CCT CCT CCA CAT CAC AA |
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| A*06 | 5' |
GCC GGA GTA TTG GGA CCA |
0.5 μM | 1 | ||
| 3' |
GAC AGG TGT ATC TCT GCT CCT CTT |
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| A*07 grp | 5' | GGG TGC GGC GGA GCA GA | 0.5 μM | 0.5 μM | 4 | |
| 3' | CAC GAT GGG AAT GGT GGA CTC | |||||
| A*08 | 5' | TTG GGA CCG GAA CAC ACG GAT CTA | 0.1 μM | 0.3 μM | 1 | |
| 3' | TGC GCT GGG TGT TCT GAG CA | |||||
| A*11 | 5' | CGG GGA GCC CCG CTT CTT CA | 0.25 μM | 0.8 μM | 500 mM | 1 |
| 3' | CTC GCC CTC CAG GTA GGT | |||||
| A*12 | 5' | CGG CTG CGA CCT GGG A | 0.5 μM | 3 | ||
| 3' | CCC CAT CCC GCT GCC AT | |||||
| A*1902 | 5' | CTC GCA CTC CAT GAG GTA TTT CAG | 0.5 μM | 1 | ||
| 3' | CTC GCC CTC CAG GTA GGT | |||||
| B*01 | 5' | CAG CGA CGC CGA GAG TCG | 0.3 μM | 0.3 μM | 1 | |
| 3' | CCG CGG CGG TCC AGG AGT | |||||
| B*03 | 5' | TTC GTG CGG TTC GAC AGT | 0.75 μM | 0.3 μM | 2 | |
| 3' | GTT CCA TCT CCT CCT GGC CTA | |||||
| B*04 | 5' | GCG CGA AAC GCC CAA AGA CAG | 1.0 μM | 0.3 μM | 1 | |
| 3' | CTG GAC GCA GCC TGA GAG TAG | |||||
| B*06 grp | 5' | GGG GTC CTG GCC CTG ACT | 0.5 μM | 0.5 μM | 2 | |
| 3' | ATC CCG CTG CCA GGT CAG TGA | |||||
| B*07 grp | 5' | GCC GGG AAC CCT GGT ATT | 0.5 μM | 0.5 μM | 2 | |
| 3' | CGC GCA GCA GCG ACT CA | |||||
| B*08 | 5' | CGT GAG GCG GAG CAG GTC | 0.5 μM | 0.3 μM | 1 | |
| 3' | CCA CAG CTC CGA TGA ACA CAG | |||||
| B*17 | 5' | GCC GGC TCG CAC TCC ATG AA | 0.5 μM | 0.3 μM | 2 | |
| 3' | GCG CGC TGC AGC GTC TCC | |||||
| B*22 | 5' | CCG AGG GAA CCT GAG GAC A | 0.5 μM | 0.5 μM | 2 | |
| 3' | TCG CCC TCC AGG TAG GCT | |||||
| B*29 grp | 5' | GGC CGG AGT ATT GGG AAG AGG AA | 0.3 μM | 0.5 μM | 1 | |
| 3' | GGA GCG CAG GTC CTC GTT CAC | |||||
| B*30 | 5' | TAT TTC AGC ACC ACC GTG TCC T | 0.5 μM | 0.5 μM | 1 | |
| 3' | GCA GCG TCT CCT TCC CT | |||||
| B*3003 | 5' | TAT TTC AGC ACC ACC GTG TCC T | 1.5 μM | 2 | ||
| 3' | ACG TGT GTC TTT GGG GGA | |||||
| B*46 grp | 5' | GGG CCG GAG TAT TGG GAG | 0.5 μM | 0.5 μM | 3 | |
| 3' | GAT CCG CGC GCT GCA GCA | |||||
| B*47 grp | 5' | CCG GGA GAC ACG GAA AGC A | 0.5 μM | 0.5 μM | 2 | |
| 3' | CTG GGT GTT CTG AGC CGC T | |||||
| B*48 | 5' | CCG AGT GGG CCT GGG GAT | 0.2 μM | 0.5 μM | 2 | |
| 3' | TCT GAG CCG CCA TGT CCC | |||||
| B*52 | 5' | GTG AAC CTG GGG ACC GCA | 0.3 μM | 0.5 μM | 1 | |
| 3' | GGC AGC CCC TGG TGC TGT | |||||
| B*55 | 5' | GGC TGC AAC GTG GGA CCA | 0.2 μM | 0.5 μM | 1 | |
| 3' | TCC CCT TCC CGC TGC CAA | |||||
| B*57 | 5' | GCC GTG GAT GGA GCA GGA GA | 0.5 μM | 1 | ||
| 3' | GAG CCA CTC CAG GCA CCG | |||||
| B*5802 | 5' | CTC CAG TGG ATG TAC GGC TGT | 0.5 μM | 0.5 μM | 1 | |
| 3' | CCC TCG TGC TGT ACA TGG CAT | |||||
| B*60 | 5' | GGC GGA GCA GGA GGG TCT | 0.5 μM | 2 | ||
| 3' | GCT CTG CCT CGC GGG CCA | |||||
| B*64 | 5' | CCC TGA ACC GGG ACC TGA | 0.5 μM | 0.5 μM | 2 | |
| 3' | GCG ACC ACA GCT CCG GTA |
Primers developed in the MHC Typing Core of the University of Wisconsin AIDS Vaccine Research Laboratory
This research was supported by National Institutes of Health grant R24 RR016038 awarded to David I. Watkins
Genotyping references:
Kaizu M, et al. Molecular typing of major histocompatibility complex class I alleles in the Indian rhesus macaque which restrict SIV CD8(+) T cell epitopes. Immunogenetics. 2007 Jul 20; [Epub ahead of print].
Yant LJ, et al. The high-frequency major histocompatibility complex class I allele Mamu-B*17 is associated with control of simian immunodeficiency virus SIVmac239 replication. J Virol. 2006 May;80(10):5074-7. Erratum in: J Virol. 2006 Jul;80(13):6720.
Loffredo JT, et al. Mamu-B*08-positive macaques control simian immunodeficiency virus replication. J Virol. 2007 Aug;81(16):8827-32. Epub 2007 May 30.
Giraldo-Vela JP, et al. The major histocompatibility complex class II alleles Mamu-DRB1*1003 and -DRB1*0306 are enriched in a cohort of simian immunodeficiency virus-infected rhesus macaque elite controllers. J Virol. 2008 Jan;82(2):859-70.
PCR-SSP primers for 8 common Chinese rhesus macaque MHC class I alleles
| Allele | Primer Sequence | Concentration | |
| Mamu-A1*2601 | 5' | GAG AGC CTG CGG AAC CTC | 0.5 μM |
| 3' | GCT TCC ATG TCA GTG TGA TCC | ||
| Mamu-A1*5702 | 5' | CAT GTG ACC CAC CAC CCT | 0.5 μM |
| 3' | CTC TTC CTC CTC CAC ATC ACA A | ||
| Mamu-B*1702 | 5' | AAC GGT GAC CTG CGC TCT | 0.5 μM |
| 3' | CTC TTC TCC AGA AGG CAC CAA | ||
| Mamu-B*3901 | 5' | GAC GTC GAG AGT CCG AGG T | 0.5 μM |
| 3' | CCT CAT GGT CAG AGA TGG GA | ||
| Mamu-B*8901 | 5' | GGC TGC CGG AGC CTG | 0.5 μM |
| 3' | GAC ACA CAA GAG CTC TGG GC | ||
| Mamu-B*9001 | 5' | GGG AGG CGA CCC GTT AT | 0.5 μM |
| 3' | GCC AAG CCA ACA ACA ATG G | ||
| Mamu-B*9101 | 5' | GGG TCT CAC ACC ATC CAG ATA | 0.5 μM |
| 3' | TAG GGT GAG GGG CTC CA | ||
| Mamu-B*1902 | 5' | GAG GGG GGG TCT CAC ACA G | 0.5 μM |
| 3' | GGT GAC AAC TGC TAG GAC AGC A |
*The annealing temperature used to amplify Mamu-B*1902 was 69°C, while the annealing temperature used to amplify the remaining 7 alleles was 65°C.
Reference:
Karl JA, et al. Identification of MHC class I sequences in Chinese-origin rhesus macaques. Immunogenetics. 2008 Jan;60(1):37-46. Epub 2007 Dec 21.
| Allele | Primer Sequence | Concentration | |
| B*430101 | 5' | CGC ACT CCA TGA GGT ATT TCA C | 0.5 μM |
| 3' | CCC TCC TGC TCC ATC CAC T | ||
| B*440101 | 5' | GAG CCC TGG TAT CTC GAA GTT | 0.5 μM |
| 3' | GGT GAG TCT GTG CGG TGA | ||
| B*460101 | 5' | GGG AGC CCC GCT TCA C | 0.5 μM |
| 3' | CCA TCT CCT GCT GGC CTA | ||
| B*510101 | 5' | CAA GGA CGC CGC ACA GT | 0.5 μM |
| 3' | GAT ACC CGC GGA GGA GGT |
*The annealing temperature used to amplify B*430101 was 69°C, while the annealing temperature used to amplify the other three alleles was 67°C.
Reference:
Mee ET, et al. MHC haplotype frequencies in a UK breeding colony of Mauritian cynomolgus macaques mirror those found in a distinct population from the same geographic origin. J Med Primatol. 2009 Feb;38(1):1-14. Epub 2008 Nov 5.