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Fernández Souto D, Rosello J, Lazo L, Veloso F, Gamba C, Kuperman S, Roca V. HLA diversity in the Argentinian Umbilical Cord Blood Bank: frequencies according to donor's reported ancestry and geographical distribution. Sci Rep 2021; 11:4140. [PMID: 33602993 PMCID: PMC7892815 DOI: 10.1038/s41598-021-83282-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/27/2020] [Accepted: 02/01/2021] [Indexed: 11/09/2022] Open
Abstract
Umbilical cord blood (UCB) is a suitable source for hematopoietic stem cell transplantation. The study of HLA genes by next generation sequencing is commonly used in transplants. Donor/patient HLA matching is often higher within groups of common ancestry, however "Hispanic" is a broad category that fails to represent Argentina's complex genetic admixture. Our aim is to describe HLA diversity of banked UCB units collected across the country taking into consideration donor's reported ancestral origins as well as geographic distribution. Our results showed an evenly distribution of units mainly for 2 groups: of European and of Native American descent, each associated to a defined geographic location pattern (Central vs. North regions). We observed differences in allele frequency distributions for some alleles previously described in Amerindian populations: for Class I (A*68:17, A*02:11:01G, A*02:22:01G, B*39:05:01, B*35:21, B*40:04, B*15:04:01G, B*35:04:01, B*51:13:01) and Class II (DRB1*04:11:01, DRB1*04:07:01G/03, DRB1*08:02:01, DRB1*08:07, DRB1*09:01:02G, DRB1*14:02:01, DRB1*16:02:01G). Our database expands the current knowledge of HLA diversity in Argentinian population. Although further studies are necessary to fully comprehend HLA heterogeneity, this report should prove useful to increase the possibility of finding compatible donors for successful allogeneic transplant and to improve recruitment strategies for UCB donors across the country.
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Affiliation(s)
- Daniela Fernández Souto
- Cord Blood Bank, Hemotherapy Regional Center, Hospital de Pediatría Dr.Juan P. Garrahan, Combate de los Pozos 1881, (1245), Buenos Aires, Argentina
| | - Julieta Rosello
- Cord Blood Bank, Hemotherapy Regional Center, Hospital de Pediatría Dr.Juan P. Garrahan, Combate de los Pozos 1881, (1245), Buenos Aires, Argentina
| | - Laura Lazo
- Cord Blood Bank, Hemotherapy Regional Center, Hospital de Pediatría Dr.Juan P. Garrahan, Combate de los Pozos 1881, (1245), Buenos Aires, Argentina
| | - Florencia Veloso
- Cord Blood Bank, Hemotherapy Regional Center, Hospital de Pediatría Dr.Juan P. Garrahan, Combate de los Pozos 1881, (1245), Buenos Aires, Argentina
| | - Cecilia Gamba
- Cord Blood Bank, Hemotherapy Regional Center, Hospital de Pediatría Dr.Juan P. Garrahan, Combate de los Pozos 1881, (1245), Buenos Aires, Argentina
| | - Silvina Kuperman
- Cord Blood Bank, Hemotherapy Regional Center, Hospital de Pediatría Dr.Juan P. Garrahan, Combate de los Pozos 1881, (1245), Buenos Aires, Argentina
| | - Valeria Roca
- Cord Blood Bank, Hemotherapy Regional Center, Hospital de Pediatría Dr.Juan P. Garrahan, Combate de los Pozos 1881, (1245), Buenos Aires, Argentina.
- National Research Council, Buenos Aires, Argentina.
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Hurley CK, Hou L, Lazaro A, Gerfen J, Enriquez E, Galarza P, Rodriguez Cardozo MB, Halagan M, Maiers M, Behm D, Ng J. Next generation sequencing characterizes the extent of HLA diversity in an Argentinian registry population. HLA 2018; 91:175-186. [DOI: 10.1111/tan.13210] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/26/2017] [Revised: 12/22/2017] [Accepted: 01/09/2018] [Indexed: 01/11/2023]
Affiliation(s)
- C. K. Hurley
- CW Bill Young Marrow Donor Recruitment and Research Program, Departments of Oncology and Pediatrics Georgetown University Washington District of Columbia
| | - L. Hou
- CW Bill Young Marrow Donor Recruitment and Research Program, Departments of Oncology and Pediatrics Georgetown University Washington District of Columbia
| | - A. Lazaro
- CW Bill Young Marrow Donor Recruitment and Research Program, Departments of Oncology and Pediatrics Georgetown University Washington District of Columbia
| | - J. Gerfen
- CW Bill Young Marrow Donor Recruitment and Research Program, Departments of Oncology and Pediatrics Georgetown University Washington District of Columbia
| | - E. Enriquez
- CW Bill Young Marrow Donor Recruitment and Research Program, Departments of Oncology and Pediatrics Georgetown University Washington District of Columbia
| | - P. Galarza
- Directora Del Registro Nacional De Donantes De Celulas Progenitoras Hematopoyeticas Instituto Nacional Central Único Coordinador de Ablación e Implante (INCUCAI) Buenos Aires Argentina
| | - M. B. Rodriguez Cardozo
- Directora Del Registro Nacional De Donantes De Celulas Progenitoras Hematopoyeticas Instituto Nacional Central Único Coordinador de Ablación e Implante (INCUCAI) Buenos Aires Argentina
| | - M. Halagan
- Bioinformatics Research National Marrow Donor Program Minneapolis Minnesota
| | - M. Maiers
- Bioinformatics Research National Marrow Donor Program Minneapolis Minnesota
| | - D. Behm
- CW Bill Young Marrow Donor Recruitment and Research Program, Departments of Oncology and Pediatrics Georgetown University Washington District of Columbia
| | - J. Ng
- CW Bill Young Marrow Donor Recruitment and Research Program, Departments of Oncology and Pediatrics Georgetown University Washington District of Columbia
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Méndez-Sánchez N, King-Martínez AC, Ramos MH, Pichardo-Bahena R, Uribe M. The Amerindian's genes in the Mexican population are associated with development of gallstone disease. Am J Gastroenterol 2004; 99:2166-70. [PMID: 15554998 DOI: 10.1111/j.1572-0241.2004.40159.x] [Citation(s) in RCA: 26] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
BACKGROUND It has been suggested that genes related to Amerindian ancestry account for the high prevalence of gallstone disease (GD) observed in Mexican-Americans. The HLA-B39 is an allele found in higher frequency in Amerindians whereas HLA-B15 is rarely found. The aim of this study was to test the hypothesis that gallstone susceptibility genes are more prevalent in Mexicans with recent Amerindian ancestry. METHODS We carried out a prospective case-controlled study. Subjects were divided into those who had stones visible on gallbladder ultrasound (cases), and those whose ultrasounds were negative for gallstones (controls). Body mass index (BMI) was calculated, and serum lipids and lipoprotein, and glucose levels were measured. Class I HLA (HLA-B) typing was performed by PCR amplification of genomic DNA. RESULTS Of the 1,101 subjects, 146 were classified as subjects with GD (cases) and 955 as subjects without GD (controls). Mean age of the cases was 53.5 +/- 12.5 yr versus 44.78 +/- 12.0 yr for the controls, p= 0.001. A family history of GD was observed in 48% of the cases versus 28.4% of the controls, p= 0.001. HLA-B39 was more frequently increased in GD subjects (0.162), compared with controls (0.063), p= 0.008. The odds ratio of having HLA-B39 was 2.8 and 95% (CI 95%= 1.3-6.3) for GD; HLA-B15 was more frequently increased in controls than in cases. CONCLUSIONS The most prevalent HLA alleles detected in these GD cases are characteristic of Amerindian populations, supporting the role of genetics in the high prevalence of the development of GD in Mexican mestizos.
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Affiliation(s)
- Nahum Méndez-Sánchez
- Department of Biomedical Research, Liver Unit, Medica Sur Clinic & Foundation, Mexico City, Mexico
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Yagüe J, Paradela A, Ramos M, Ogueta S, Marina A, Barahona F, López de Castro JA, Vázquez J. Peptide rearrangement during quadrupole ion trap fragmentation: added complexity to MS/MS spectra. Anal Chem 2003; 75:1524-35. [PMID: 12659218 DOI: 10.1021/ac026280d] [Citation(s) in RCA: 95] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
The emergence of proteomics has placed great interest in the understanding of the mechanisms of MS/MS fragmentation of peptides under low-energy collision-induced dissociation. In this work, we describe the presence of anomalous fragments, which correspond to neutral loss elimination of internal amino acids from ions of the b series in quadrupole ion trap MS/MS spectra from naturally occurring peptides. Internal amino acid elimination occurred preferentially with aliphatic amino acids. The phenomenon was more apparent when doubly charged precursors were fragmented and was inhibited when peptides were N-acetylated at the N-terminus. Fragmentation of isomeric peptides where some internal amino acids were relocated in N-terminal position produced MSn spectra indistinguishable from those of the original peptides, indicating that some b ions underwent a structural rearrangement process. Formation of anomalous fragments required a minimum activation time. Our data are consistent with a nucleophile attack of the N-terminal nitrogen over the electrophilic carbonyl carbon at one peptide bond, forming a cyclic b ion intermediate that, by reopening at preferential sites, exposes internal amino acids to the C-terminal side.
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Affiliation(s)
- Jesús Yagüe
- Centro de Biología Molecular Severo Ochoa, Consejo Superior de Investigaciones Científicas, Facultad de Ciencias, Universidad Autónoma de Madrid, Cantoblanco, 28049, Madrid, Spain
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Abstract
A review was made in relation to the molecular variability present in North, Central, and South American Indian populations. It involved results from ancient DNA, mitochondrial DNA in extant populations, HLA and other autosomal markers, X and Y chromosome variation, as well as data from parasitic viruses which could show coevolutionary changes. The questions considered were their origin, ways in which the early colonization of the continent took place, types and levels of the variability which developed, peculiarities of the Amerindian evolutionary processes, and eventual genetic heterogeneity which evolved in different geographical areas. Although much information is already available, it is highly heterogeneous in relation to populations and types of genetic systems investigated. Unfortunately, the present trend of favoring essentially applied research suggest that the situation will not basically improve in the future.
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Affiliation(s)
- Francisco M Salzano
- Departamento de Genética, Instituto de Biociências, Universidade Federal do Rio Grande do Sul, Porto Alegre, RS.
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Alaez C, Infante E, Pujol J, Duran C, Navarro JL, Gorodezky C. Molecular analysis of HLA-DRB1, DQA1, DQB1, DQ promoter polymorphism and extended class I/class II haplotypes in the Seri Indians from Northwest Mexico. TISSUE ANTIGENS 2002; 59:388-96. [PMID: 12144622 DOI: 10.1034/j.1399-0039.2002.590505.x] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
The study of the genetics of the Major Histocompatibility Complex (MHC) in Amerindians is of great value in understanding the origins and migrations of these native groups, as well as the impact of immunogenetics on the epidemiology of diseases affecting these populations. We analyzed, using Polymerase Chain Reaction and Sequence Specific Oligonucleotide Probes (PCR-SSOP), DRB1, DQA1, DQB1 alleles and the promoter regions of DQA1 and DQB1 genes in 31 unrelated and 24 related Seri, a Mexican Indian group, from the state of Sonora (Northwest Mexico). The class II genotypes of this population were found to be in genetic equilibrium. The allele frequency (AF) of the prevalent DRB1 alleles were DRB1*0407 (48.4%), DRB1*0802 (33.9%) and DRB1*1402 (16.1%). The most frequent DQA1 and DQB1 alleles were DQA1*03011 (AF = 50.00%), DQA1*0401 (AF = 33.87%) and DQA1*0501 (AF = 16.13%); DQB1*0302 (AF = 50.00%), DQB1*0402 (33.87%) and DQB1*0301 (16.13%); which were in combination with DRB1*0407, DRB1*0802 and DRB1*1402, respectively. Three QAP and three QBP alleles were present (QAP 3.1, 4.1, 4.2; QBP 3.1, 3.21, 4.1) associated with the typical published DQA1 and DQB1 alleles. Four class II haplotypes were present in family members: DRB1*0407-QAP-3.1-DQA1*03011-QBP-3.21-DQB1*0302; DRB1*0802-QAP-4.2-DQA1*0401-QBP-4.1-DQB1*0402; DRB1*1402-QAP-4.1-DQA1*0501-QBP-3.1-DQB1*0301 and DRB1*0701-QAP-2.1-DQA1*0201-QBP-2.1-DQB1*0201. The family data were used to confirm extended haplotypes. A total of 21 haplotypes were found when A* and B* loci were also considered. The three most frequent combinations included A*0201-B*3501-DRB1*0407, A*3101-B*5101-DRB1*0802, and A*0201-B*40-DRB1*1402.
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Affiliation(s)
- C Alaez
- Department of Immunogenetics, InDRE. SSA. Mexico City, Mexico
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Yague J, Marina A, Vazquez J, Lopez De Castro JA. Major histocompatibility complex class I molecules bind natural peptide ligands lacking the amino-terminal binding residue in vivo. J Biol Chem 2001; 276:43699-707. [PMID: 11557759 DOI: 10.1074/jbc.m105981200] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022] Open
Abstract
Major histocompatibility complex (MHC) class I-peptide complexes are stabilized by multiple interactions, including those of the peptidic NH(2)-terminal group in the A pocket of the MHC molecule. In this study, the characterization of four natural HLA-B39 ligands lacking the amino-terminal binding residue is reported. These peptides were found in the endogenous peptide pool of one or more of the B*3901, B*3905, and B*3909 allotypes and sequenced by nanoelectrospray mass spectrometry. Control experiments ruled out that they resulted from exopeptidase trimming of their NH(2)-terminally extended counterparts: NAc-SHVAVENAL, EHGPNPIL, IHEPEPHIL, and EHAGVISVL, also present in the same peptide pools, during purification. HAGVISVL and HVAVENAL behaved similarly to the corresponding NH(2)-terminally extended peptides in their binding to B*3901 and B*3909 at the cell surface in vitro, and in cell surface stabilization of B*3901. This is, to our knowledge, the first demonstration that peptides lacking the amino-terminal binding residue bind in vivo to classical MHC class I molecules. The results indicate that canonical MHC-peptide interactions in the A pocket are not always necessary for endogenous peptide presentation.
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Affiliation(s)
- J Yague
- Centro de Biologia Molecular Severo Ochoa (Consejo Superior de Investigaciones Cientificas), Universidad Autónoma de Madrid, Facultad de Ciencias, 28049 Madrid, Spain
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