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Bultitude WP, Gymer AW, Robinson J, Mayor NP, Marsh SGE. The novel KIR2DL1 allele, KIR2DL1*037, defined in the cell line SPO010 (IHW9036). HLA 2019; 91:547-548. [PMID: 29660261 DOI: 10.1111/tan.13274] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/03/2018] [Revised: 04/05/2018] [Accepted: 04/09/2018] [Indexed: 11/28/2022]
Abstract
The novel KIR2DL1*037 allele discovered and characterised by single molecule real-time (SMRT) DNA sequencing.
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Affiliation(s)
- W P Bultitude
- Anthony Nolan Research Institute, Royal Free Hospital, London, UK.,Cancer Institute, University College London, London, UK
| | - A W Gymer
- Anthony Nolan Research Institute, Royal Free Hospital, London, UK
| | - J Robinson
- Anthony Nolan Research Institute, Royal Free Hospital, London, UK.,Cancer Institute, University College London, London, UK
| | - N P Mayor
- Anthony Nolan Research Institute, Royal Free Hospital, London, UK.,Cancer Institute, University College London, London, UK
| | - S G E Marsh
- Anthony Nolan Research Institute, Royal Free Hospital, London, UK.,Cancer Institute, University College London, London, UK
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2
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Bultitude WP, Gymer AW, Robinson J, Mayor NP, Marsh SGE. KIR2DL1 allele sequence extensions and discovery of 2DL1*0010102 and 2DL1*0010103 alleles by DNA sequencing. HLA 2019; 91:546-547. [PMID: 29653034 DOI: 10.1111/tan.13269] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/03/2018] [Accepted: 04/04/2018] [Indexed: 12/01/2022]
Abstract
Full-length KIR2DL1 allele sequence extensions characterised by single molecule real-time (SMRT) DNA sequencing.
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Affiliation(s)
- W P Bultitude
- Anthony Nolan Research Institute, Royal Free Hospital, London, UK.,Cancer Institute, University College London, London, UK
| | - A W Gymer
- Anthony Nolan Research Institute, Royal Free Hospital, London, UK
| | - J Robinson
- Anthony Nolan Research Institute, Royal Free Hospital, London, UK.,Cancer Institute, University College London, London, UK
| | - N P Mayor
- Anthony Nolan Research Institute, Royal Free Hospital, London, UK.,Cancer Institute, University College London, London, UK
| | - S G E Marsh
- Anthony Nolan Research Institute, Royal Free Hospital, London, UK.,Cancer Institute, University College London, London, UK
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3
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Turner TR, Hayhurst JD, Hayward DR, Bultitude WP, Barker DJ, Robinson J, Madrigal JA, Mayor NP, Marsh SGE. Single molecule real-time DNA sequencing of HLA genes at ultra-high resolution from 126 International HLA and Immunogenetics Workshop cell lines. HLA 2017; 91:88-101. [PMID: 29171935 DOI: 10.1111/tan.13184] [Citation(s) in RCA: 39] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/29/2017] [Revised: 11/01/2017] [Accepted: 11/20/2017] [Indexed: 01/10/2023]
Abstract
The hyperpolymorphic HLA genes play important roles in disease and transplantation and act as genetic markers of migration and evolution. A panel of 107 B-lymphoblastoid cell lines (B-LCLs) was established in 1987 at the 10th International Histocompatibility Workshop as a resource for the immunogenetics community. These B-LCLs are well characterised and represent diverse ethnicities and HLA haplotypes. Here we have applied Pacific Biosciences' Single Molecule Real-Time (SMRT) DNA sequencing to HLA type 126 B-LCL, including the 107 International HLA and Immunogenetics Workshop (IHIW) cells, to ultra-high resolution. Amplicon sequencing of full-length HLA class I genes (HLA-A, -B and -C) and partial length HLA class II genes (HLA-DRB1, -DQB1 and -DPB1) was performed. We typed a total of 931 HLA alleles, 895 (96%) of which were consistent with the typing in the IPD-IMGT/HLA Database (Release 3.27.0, January 20, 2017), with 595 (64%) typed at a higher resolution. Discrepant types, including novel alleles (n = 10) and changes in zygosity (n = 13), as well as previously unreported types (n = 34) were observed. In addition, patterns of linkage disequilibrium were distinguished by four-field resolution typing of HLA-B and HLA-C. By improving and standardising the HLA typing of these B-LCLs, we have ensured their continued usefulness as a resource for the immunogenetics community in the age of next generation DNA sequencing.
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Affiliation(s)
- T R Turner
- Anthony Nolan Research Institute, Royal Free Hospital, London, UK.,UCL Cancer Institute, Royal Free Campus, London, UK
| | - J D Hayhurst
- Anthony Nolan Research Institute, Royal Free Hospital, London, UK
| | - D R Hayward
- Anthony Nolan Research Institute, Royal Free Hospital, London, UK
| | - W P Bultitude
- Anthony Nolan Research Institute, Royal Free Hospital, London, UK.,UCL Cancer Institute, Royal Free Campus, London, UK
| | - D J Barker
- Anthony Nolan Research Institute, Royal Free Hospital, London, UK
| | - J Robinson
- Anthony Nolan Research Institute, Royal Free Hospital, London, UK.,UCL Cancer Institute, Royal Free Campus, London, UK
| | - J A Madrigal
- Anthony Nolan Research Institute, Royal Free Hospital, London, UK.,UCL Cancer Institute, Royal Free Campus, London, UK
| | - N P Mayor
- Anthony Nolan Research Institute, Royal Free Hospital, London, UK.,UCL Cancer Institute, Royal Free Campus, London, UK
| | - S G E Marsh
- Anthony Nolan Research Institute, Royal Free Hospital, London, UK.,UCL Cancer Institute, Royal Free Campus, London, UK
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Hayward DR, Bultitude WP, Mayor NP, Madrigal JA, Marsh SGE. The novelHLA-B*44allele,HLA-B*44:220, identified by Single Molecule Real-Time DNA sequencing in a British Caucasoid male. ACTA ACUST UNITED AC 2015; 86:61-3. [DOI: 10.1111/tan.12586] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/06/2015] [Accepted: 05/11/2015] [Indexed: 11/27/2022]
Affiliation(s)
- D. R. Hayward
- Anthony Nolan Research Institute; Royal Free Hospital; London UK
| | - W. P. Bultitude
- Anthony Nolan Research Institute; Royal Free Hospital; London UK
| | - N. P. Mayor
- Anthony Nolan Research Institute; Royal Free Hospital; London UK
- UCL Cancer Institute; Royal Free Campus; London UK
| | - J. A. Madrigal
- Anthony Nolan Research Institute; Royal Free Hospital; London UK
- UCL Cancer Institute; Royal Free Campus; London UK
| | - S. G. E. Marsh
- Anthony Nolan Research Institute; Royal Free Hospital; London UK
- UCL Cancer Institute; Royal Free Campus; London UK
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Bultitude WP, Mayor NP, McWhinnie AJ, Madrigal JA, Marsh SGE. Genomic sequence of the rare HLA-A*02:95 allele identified by sequence-based typing and cloning. ACTA ACUST UNITED AC 2014; 84:324-6. [PMID: 24953996 DOI: 10.1111/tan.12397] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/08/2014] [Accepted: 05/21/2014] [Indexed: 11/30/2022]
Abstract
Genomic sequence of HLA-A*02:95 identified in an Anthony Nolan volunteer donor.
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Affiliation(s)
- W P Bultitude
- Anthony Nolan Research Institute, Royal Free Hospital, London, UK
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