Nomenclature for Factors of the HLA System

August 2006

Compiled by Steven G. E. Marsh for the WHO Nomenclature Committee for Factors of the HLA System.

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The following sequences have been submitted to the Nomenclature Committee since the July 2006 nomenclature update and, following agreed policy, have been assigned official allele designations. Full details of all sequences will be published in a forthcoming report.

Below are listed the newly assigned sequences (Table 1) and confirmations of previously reported sequences (Table 2). The accession number of each sequence is given and these can be used to retrieve the sequence files from either the EMBL, GenBank or DDBJ data libraries. Although accession numbers have been assigned by the data libraries and most sequences are already available, there is still the possibility that an author may not yet have allowed the sequence to be released, in such a case you will have to contact the submitting author directly. Additional information pertaining to new sequences is often included in the publications describing these alleles, a listing of recent publications which describe new HLA sequences is given in Table 3.

The sequences A*0298, Cw*0422 and DRB3*010101 were recently shown to be in error and have been shown to be identical to A*0296, Cw*0421 and DRB3*01010201 respectively, the names A*0298, Cw*0422 and DRB3*010101 have now been abandoned.

All new and confirmatory sequences should now be submitted directly to the WHO Nomenclature Committee for Factors of the HLA System via the IMGT/HLA Database using the sequence submission tool provided. The IMGT/HLA Database may be accessed via the world wide web at : http://www.ebi.ac.uk/imgt/hla/.

Table 1: New Sequences


Sequence Cell identification Accession number Submitting Author References
A*240212 BJ004 DQ905958 Zhixin Zhang, Beijing, China  
A*2633 UKE-SA AM295253 Thomas Binder, Hamburg, Germany  
A*3018 SZ-4 DQ872509 Hong-Yan Zou, Shenzhen, China  
A*3114N A31-Null DQ899174 Douglas Smith, Dallas, USA  
A*3213 BY00128 DQ898275 Carolyn Hurley, Washington, USA  
B*180103 90233 DQ886702 Mary Sue Leffell, Baltimore, USA  
B*3568 BY00126 DQ888174 Carolyn Hurley, Washington, USA  
B*4209 NT00674 DQ832584 Carolyn Hurley, Washington, USA  
B*4448 NT00676 DQ832589 Carolyn Hurley, Washington, USA  
B*530104 NMDP-0414-1934-2 DQ865480 Deborah Crowe, Nashville, USA  
B*5312 HSR117324 AM292927 Hien Tran, Heidelberg, Germany  
B*9518 TJBC-9741 DQ864729 Lina Yan, Tianjin, China  
B*9519 NT00675 DQ832585 Carolyn Hurley, Washington, USA  
Cw*0331 380047 AM384883 Sonia Nesci, Pesaro, Italy  
Cw*060202 SJ280/32 AM285029 Gottfried Fischer, Vienna, Austria  
F*01010108 QBL AL844851 Stephan Beck, Cambridge, UK  
J*01010101 CGM1 AF055066 Annie Hampe, Rennes, France (1)
J*01010101 CGM1 AC005404 Daniel E Geraghty, Seattle, USA  
J*01010101 MOU BX927229 Stephan Beck, Cambridge, UK  
J*01010102 COX AL645935 Stephan Beck, Cambridge, UK (2)
J*01010102 RPCI5 BA000025,
BA000026		 Hidetoshi Inoko, Isehara, Japan (3)
J*01010102 APD CR759960 Stephan Beck, Cambridge, UK  
J*01010102 DBB CR388205 Stephan Beck, Cambridge, UK  
J*01010103 CD M80469 John Girdlestone, Cambridge, UK (4)
J*01010104 PGF AL669914,
AL671277		 Stephan Beck, Cambridge, UK (2)
J*01010105 MCF CR759763 Stephan Beck, Cambridge, UK  
J*01010106 SSTO BX005091,
BX120004,
BX088647		 Stephan Beck, Cambridge, UK  
J*01010107 MOLT-4 M80468 John Girdlestone, Cambridge, UK (4)
J*01010108 QBL AL845454 Stephan Beck, Cambridge, UK (5)
J*0201 LCL721 M80470 John Girdlestone, Cambridge, UK (4)
J*0201 LCL721 M96337 Daniel E Geraghty, Seattle, USA (6)
DRB3*020205 9791 DQ309438 Michele Curcio, Pisa, Italy  
DQB1*060302 R31718 AM293569 Hien Tran, Heidelberg, Germany  

Table 2: Confirmatory Sequences


Sequence Cell Identification Accession Number Submitting Author
A*0296 X0003339 AY897620 Lia Mele, Alessandria, Italy
A*7403 F468 DQ870546 Angelica Canossi, L'Aquila, Italy
A*7411 NT00639 DQ888175 Carolyn Hurley, Washington, USA
Cw*0421 NT00673 DQ648008 Carolyn Hurley, Washington, USA
Cw*1517 CTM-2693858 DQ833439 Antonio Balas, Madrid, Spain
DRB1*1449 BY00127 DQ882243 Carolyn Hurley, Washington, USA

Table 3: Recently Published Sequences


Sequence References
A*010103 (7)
A*0291 (8)
A*2312 (9)
A*240211 (10)
A*2458 (11)
A*2459 (12)
B*4048 (13)
B*5408N (14)
B*550104 (15)
B*5519 (16)
B*9514 (17)
DQA1*010203 (18)
DQA1*0506 (18)
DQA1*0507 (18)
DQA1*0508 (18)
DQB1*030504 (19)
DPB1*1702 (20)

References

  1. Hampe A, Coriton O, Andrieux N, et al.: A 356-Kb sequence of the subtelomeric part of the MHC Class I region. DNA Seq 1999 10: 263-99.
  2. Stewart CA, Horton R, Allcock RJ, et al.: Complete MHC haplotype sequencing for common disease gene mapping. Genome Res 2004 14:1176-87.
  3. Shiina T, Tamiya G, Oka A, et al.: Molecular dynamics of MHC genesis unraveled by sequence analysis of the 1,796,938-bp HLA class I region. Proc Natl Acad Sci USA 1999 96:13282-7.
  4. Messer G, Zemmour J, Orr HT, Parham P, Weiss EH, Girdlestone J: HLA-J, a second inactivated class I HLA gene related to HLA-G and HLA-A. Implications for the evolution of the HLA-A-related genes. J Immunol 1992 148:4043-53.
  5. Traherne JA, Horton R, Roberts AN, et al.: Genetic Analysis of Completely Sequenced Disease-Associated MHC Haplotypes Identifies Shuffling of Segments in Recent Human History. PLoS Genet 2006 2:e9.
  6. Geraghty DE, Koller BH, Pei J, Hansen JA: Examination of four HLA class I pseudogenes. Common events in the evolution of HLA genes and pseudogenes. J Immunol 1992: 149:1947-56.
  7. Voorter CE, Groeneveld L, Visser D, van den Berg-Loonen EM: Characterization of a new HLA-A allele, A*010103. Tissue Antigens 2006 68:173-4.
  8. Jeong SM, Hur SS, Park SY, Kwon OJ, Nah SY: Characterization of a new HLA-A*02 allele, HLA-A*0291, in the Korean population. Tissue Antigens 2006 68:178-80.
  9. Hammond L, Bengtsson M, Street J, Pepperall J, Darke C: HLA-A*2312--a novel allele found during testing for the UK NEQAS for H&I DNA HLA-typing scheme. Tissue Antigens 2006 68:175-6.
  10. Jeong SM, Park SY, Lee MN, Kwon OJ, Nah SY: A new HLA-A*24 variant, A*240211, identified by sequence-based typing in the Korean population. Tissue Antigens 2006 68:174-5.
  11. Danzer M, Polin H, Fae I, Fischer GF, Gabriel C: Exon 1-4 sequence analysis of a novel HLA-A allele, HLA-A*2458. Tissue Antigens 2006 68:177-8.
  12. Yan LX, Zhu FM, Lv QF: Identification of a novel HLA-A*2459 allele in the Chinese population. Tissue Antigens 2006 68:177.
  13. Chu CC, Lee HL, Chen ZS, Lin M: Identification of a novel human leukocyte antigen-B allele, B*4048, in Taiwan. Tissue Antigens 2006 68:180-1.
  14. Yan LX, Zhu FM, Lv QF: Sequence analysis of the novel allele HLA-B*5408N in the Chinese population. Tissue Antigens 2006 68:182.
  15. Hammond L, Street J, Downing J, Pepperall J, Darke C: A new HLA-B*5501 variant--B*550104. Tissue Antigens 2006 68:182-3.
  16. Jeong SM, Lee MN, Park SY, Kwon OJ, Nah SY: Identification of a new HLA-B*55 allele, HLA-B*5519, in the Korean population. Tissue Antigens 2006 68:183-5.
  17. Altermann WW, Wahle A, Seliger B, Schlaf G: A novel HLA-B70 (B*9514) allele with an amino acid substitution (alanine to glycine at protein position 139) in a Caucasian heart allograft recipient. Tissue Antigens 2006 68:185-7.
  18. Lee KW, Jung YA, Oh DH: Four novel human leukocyte antigen-DQA1 alleles identified in the Korean population. Tissue Antigens 2006 68:167-72.
  19. Visschedijk MC, van den Boomgaard P, Kouprie N, Lems SP, Hepkema BG: Characterization of a novel human leukocyte antigen-DQB1 allele, DQB1*030504. Tissue Antigens 2006 68:189-90.
  20. Li M, Nie J, Xu Y, Xu A, Yu X: Identification of a novel HLA-DPB1 allele, DPB1*1702. Tissue Antigens 2006 68:187-8.