84 results on '"Arrieta-Bolaños E"'
Search Results
2. The immunogenetic diversity of the HLA system in Mexico correlates with underlying population genetic structure
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Barquera, R., https://orcid.org/0000-0003-0518-4518, Hernández-Zaragoza, D., Bravo-Acevedo, A., Arrieta-Bolaños, E., Clayton, S., Acuña-Alonzo, V., Martínez-Álvarez, J., López-Gil, C., Adalid-Sáinz, C., Vega-Martínez, M., Escobedo-Ruíz, A., Juárez-Cortés, E., Immel, A., Pacheco-Ubaldo, H., González-Medina, L., Lona-Sánchez, A., Lara-Riegos, J., Sánchez-Fernández, M., Díaz-López, R., Guizar-López, G., Medina-Escobedo, C., Arrazola-García, M., Montiel-Hernández, G., Hernández-Hernández, O., la Cruz, R., Rocío, F., Juárez-Nicolás, F., Pantoja-Torres, J., Rodríguez-Munguía, T., Juárez-Barreto, V., Delgado-Aguirre, H., Escutia-González, A., Goné-Vázquez, I., Benítez-Arvizu, G., Arellano-Prado, F., García-Arias, V., Rodríguez-López, M., Méndez-Mani, P., García-Álvarez, R., González-Martínez, M., Aquino-Rubio, G., Escareño-Montiel, N., Vázquez-Castillo, T., Uribe-Duarte, M., Ruíz-Corral, M., Ortega-Yáñez, A., Bernal-Felipe, N., Gómez-Navarro, B., Arriaga-Perea, A., Martínez-Bezies, V., Macías-Medrano, R., Aguilar-Campos, J., Solís-Martínez, R., Serrano-Osuna, R., Sandoval-Sandoval, M., Jaramillo-Rodríguez, Y., Salgado-Adame, A., Juárez-de la Cruz, F., Novelo-Garza, B., Pavón-Vargas, M., Salgado-Galicia, N., Bortolini, M., Gallo, C., Bedoya, G., Rothhammer, F., González-José, R., Ruiz-Linares, A., Canizales-Quinteros, S., Romero-Hidalgo, S., Krause, J., https://orcid.org/0000-0001-9144-3920, Zúñiga, J., Yunis, E., Bekker-Méndez, C., Granados, J., Anthropologie bio-culturelle, Droit, Ethique et Santé (ADES), Aix Marseille Université (AMU)-EFS ALPES MEDITERRANEE-Centre National de la Recherche Scientifique (CNRS), State Key Laboratory of Genetics Engineering & MOE Key Laboratory of Contemporary Anthropology, and Fudan University [Shanghai]-School of Life Sciences
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0301 basic medicine ,musculoskeletal diseases ,media_common.quotation_subject ,Immunology ,Population ,[SHS.ANTHRO-BIO]Humanities and Social Sciences/Biological anthropology ,Medizin ,Library science ,LATIN AMERICAN POPULATIONS ,Polymorphism, Single Nucleotide ,Linkage Disequilibrium ,MEXICO ,Major Histocompatibility Complex ,purl.org/becyt/ford/1 [https] ,03 medical and health sciences ,0302 clinical medicine ,Gene Frequency ,HLA Antigens ,immune system diseases ,Political science ,POPULATION GENETICS ,Humans ,Immunology and Allergy ,education ,skin and connective tissue diseases ,purl.org/becyt/ford/1.6 [https] ,Mexico ,Biological sciences ,Alleles ,ComputingMilieux_MISCELLANEOUS ,media_common ,education.field_of_study ,Genome, Human ,DNA ,General Medicine ,GENETIC SUBSTRUCTURE ,purl.org/pe-repo/ocde/ford#3.01.03 [https] ,3. Good health ,ADMIXTURE ,HLA ,Genetics, Population ,030104 developmental biology ,Haplotypes ,Research council ,IMMUNOGENETICS ,Genetic structure ,030215 immunology ,Diversity (politics) - Abstract
We studied HLA class I (HLA-A, -B) and class II (HLA-DRB1, -DQB1) allele groups and alleles by PCR-SSP based typing in a total of 15,318 mixed ancestry Mexicans from all the states of the country divided into 78 sample sets, providing information regarding allelic and haplotypic frequencies and their linkage disequilibrium, as well as admixture estimates and genetic substructure. We identified the presence of 4268 unique HLA extended haplotypes across Mexico and find that the ten most frequent (HF > 1%) HLA haplotypes with significant linkage disequilibrium (Δ’≥0.1) in Mexico (accounting for 20% of the haplotypic diversity of the country) are of primarily Native American ancestry (A*02~B*39~DRB1*04~DQB1*03:02, A*02~B*35~DRB1*08~DQB1*04, A*68~B*39~DRB1*04~DQB1*03:02, A*02~B*35~DRB1*04~DQB1*03:02, A*24~B*39~DRB1*14~DQB1*03:01, A*24~B*35~DRB1*04~DQB1*03:02, A*24~B*39~DRB1*04~DQB1*03:02, A*02~B*40:02~DRB1*04~DQB1*03:02, A*68~B*35~DRB1*04~DQB1*03:02, A*02~B*15:01~DRB1*04~DQB1*03:02). Admixture estimates obtained by a maximum likelihood method using HLA-A/-B/-DRB1 as genetic estimators revealed that the main genetic components in Mexico as a whole are Native American (ranging from 37.8% in the northern part of the country to 81.5% in the southeastern region) and European (ranging from 11.5% in the southeast to 62.6% in northern Mexico). African admixture ranged from 0.0 to 12.7% not following any specific pattern. We were able to detect three major immunogenetic clusters correlating with genetic diversity and differential admixture within Mexico: North, Central and Southeast, which is in accordance with previous reports using genome-wide data. Our findings provide insights into the population immunogenetic substructure of the whole country and add to the knowledge of mixed ancestry Latin American population genetics, important for disease association studies, detection of demographic signatures on population variation and improved allocation of public health resources. Fil: Barquera, Rodrigo. Max Planck Institute For The Science Of Human History; Alemania. Instituto Nacional de Antropología E Historia. Escuela Nacional de Antropología E Historia; México Fil: Hernández Zaragoza, Diana Iraíz. Técnicas Genéticas Aplicadas A la Clínica (tgac); México. Instituto Nacional de Antropología E Historia. Escuela Nacional de Antropología E Historia; México Fil: Bravo Acevedo, Alicia. Instituto Mexicano del Seguro Social; México Fil: Arrieta Bolaños, Esteban. Universitat Essen; Alemania Fil: Clayton, Stephen. Max Planck Institute For The Science Of Human History; Alemania Fil: Acuña Alonzo, Víctor. Instituto Nacional de Antropología E Historia, Mexico; México Fil: Martínez Álvarez, Julio César. Instituto Mexicano del Seguro Social; México Fil: López Gil, Concepción. Instituto Mexicano del Seguro Social; México Fil: Adalid Sáinz, Carmen. Instituto Mexicano del Seguro Social; México Fil: Vega Martínez, María del Rosario. Hospital Central Sur de Alta Especialidad; México Fil: Escobedo Ruíz, Araceli. Instituto Mexicano del Seguro Social; México Fil: Juárez Cortés, Eva Dolores. Instituto Mexicano del Seguro Social; México Fil: Immel, Alexander. Max Planck Institute For The Science Of Human History; Alemania. Christian Albrechts Universitat Zu Kiel; Alemania Fil: Pacheco Ubaldo, Hanna. Instituto Nacional de Antropología E Historia. Escuela Nacional de Antropología E Historia; México Fil: González Medina, Liliana. Instituto Nacional de Antropología E Historia. Escuela Nacional de Antropología E Historia; México Fil: Lona Sánchez, Abraham. Instituto Nacional de Antropología E Historia. Escuela Nacional de Antropología E Historia; México Fil: Lara Riegos, Julio. Universidad Autónoma de Yucatán; México Fil: Sánchez Fernández, María Guadalupe de Jesús. Instituto Mexicano del Seguro Social; México Fil: Díaz López, Rosario. Hospital Central Militar, Mexico City; México Fil: Guizar López, Gregorio Ulises. Hospital Central Militar, Mexico City; México Fil: Medina Escobedo, Carolina Elizabeth. Instituto Mexicano del Seguro Social; México Fil: Arrazola García, María Araceli. Instituto Mexicano del Seguro Social; México Fil: Montiel Hernández, Gustavo Daniel. Instituto Nacional de Antropología E Historia. Escuela Nacional de Antropología E Historia; México Fil: Hernández Hernández, Ofelia. Técnicas Genéticas Aplicadas a la Clínica ; México Fil: Ramos de la Cruz, Flor del Rocío. Instituto Mexicano del Seguro Social; México Fil: Juárez Nicolás, Francisco. Instituto Nacional de Pediatría; México Fil: Pantoja Torres, Jorge Arturo. Instituto Mexicano del Seguro Social; México Fil: Rodríguez Munguía, Tirzo Jesús. Hospital General Norberto Treviño Zapata; México Fil: Juárez Barreto, Vicencio. Hospital Infantil de Mexico Federico Gomez; México Fil: Gonzalez-Jose, Rolando. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Centro Nacional Patagónico. Instituto Patagónico de Ciencias Sociales y Humanas; Argentina
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- 2020
3. Transforming growth factor-β1 polymorphisms and the outcome of hematopoietic stem cell transplantation
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Arrieta-Bolaños, E., Alejandro Madrigal, J., and Shaw, B. E.
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- 2012
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4. High-resolution HLA allele and haplotype frequencies in majority and minority populations of Costa Rica and Nicaragua: Differential admixture proportions in neighboring countries
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Arrieta-Bolaños, E., primary, Madrigal-Sánchez, J. J., additional, Stein, J. E., additional, Órlich-Pérez, P., additional, Moreira-Espinoza, M. J., additional, Paredes-Carias, E., additional, Vanegas-Padilla, Y., additional, Salazar-Sánchez, L., additional, Madrigal, J. A., additional, Marsh, S. G. E., additional, and Shaw, B. E., additional
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- 2018
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5. A novel HLA-A allele,A*74:23, identified in an individual from Costa Rica
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Arrieta-Bolaños, E., primary, McWhinnie, A. J., additional, Madrigal-Sánchez, J. J., additional, Calvo, L., additional, Salazar-Sánchez, L., additional, Madrigal, J. A., additional, Marsh, S. G. E., additional, and Shaw, B. E., additional
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- 2014
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6. Prevalence and geographic distribution of haemophilia in Costa Rica
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Arroyo, J., primary, Salazar-Sánchez, L., primary, Jiménez-Cruz, G., primary, Chaverri, P., primary, Arrieta-Bolaños, E., primary, and Morera, B., primary
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- 2010
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7. Alloreactive T Cell Receptor Diversity against Structurally Similar or Dissimilar HLA-DP Antigens Assessed by Deep Sequencing
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Arrieta-Bolaños, E, primary, Crivello, P, additional, Metzing, M, additional, Meurer, T, additional, Ahci, M, additional, Rytlewski, J, additional, Vignali, M, additional, Yusko, E, additional, van Balen, P, additional, Horn, PA, additional, Falkenburg, JHF, additional, and Fleischhauer, K, additional
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8. A novel HLA-A allele, A*74:23, identified in an individual from Costa Rica.
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Arrieta‐Bolaños, E., McWhinnie, A. J., Madrigal‐Sánchez, J. J., Calvo, L., Salazar‐Sánchez, L., Madrigal, J. A., Marsh, S. G. E., and Shaw, B. E.
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ALLELES , *TISSUES , *ANTIGENS , *GENETICS - Abstract
The new HLA‐A*74:23 allele differs from the closest allele A*74:01 by a nucleotide change in exon 3 at codon 97. [ABSTRACT FROM AUTHOR]
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- 2014
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9. Novel Scoring System for Ranking Hematopoietic Stem Cell Transplantation.
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Baxter-Lowe LA, Wang T, Kuxhausen M, Spellman SR, Maiers M, Lee S, Saultz J, Arrieta-Bolaños E, Gadalla SM, Bolon YT, and Betts BC
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- Humans, Female, Male, Middle Aged, Adult, Prognosis, Follow-Up Studies, Young Adult, Adolescent, Survival Rate, Aged, Leukemia therapy, Leukemia mortality, Child, Unrelated Donors, Retrospective Studies, Child, Preschool, Hematopoietic Stem Cell Transplantation, Graft vs Host Disease, HLA Antigens immunology, Histocompatibility Testing, Myelodysplastic Syndromes therapy
- Abstract
Background: When human leukocyte antigen (HLA)-matched donors are not available for hematopoietic stem cell transplants (HSCT), there are no well-accepted guidelines for ranking 7/8 HLA-matched unrelated donors to achieve optimal transplant outcomes. A novel scoring system for ranking HLA mismatches for these donors was investigated., Methods: High-resolution HLA types were used to determine amino acid mismatches located in the HLA antigen-recognition domain. The location and physicochemical properties of mismatched amino acids were used to assign scores for peptide binding, T-cell receptor docking, and HLA structure/function. The scores were tested using a cohort of 2319 patients with leukemia or myelodysplastic syndrome who received their first unrelated donor transplant using conventional graft-versus-host disease (GVHD) prophylaxis between 2000 and 2014. Donors were 7/8 HLA-matched with a single HLA Class I mismatch. Primary outcomes were overall survival and acute GVHD., Results: The scores did not significantly (p < 0.01) associate with transplant outcomes, although a Peptide Score = 0 (i.e., no differences in peptide binding; N = 146, 6.3%) appears to have lower transplant-related mortality (TRM) compared to higher scores (p = 0.019). HLA mismatches with Peptide Score = 0 were predominately HLA-C*03:03/03:04 (62%), previously reported to be a permissive mismatch, and a group of 28 other HLA mismatches (38%) that showed similar associations with TRM., Conclusions: This study suggests that HLA mismatches that do not alter peptide binding or orientation (Peptide Score = 0) could expand the number of permissive HLA mismatches. Further investigation is needed to confirm this observation and to explore alternative scoring systems for ranking HLA mismatched donors., (© 2024 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.)
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- 2024
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10. Directionality of HLA-DP permissive mismatches improves risk prediction in HCT for acute leukemia and MDS.
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Arrieta-Bolaños E, van der Burg LLJ, Gedde-Dahl T, Robin M, Salmenniemi U, Kröger N, Yakoub-Agha I, Huynh A, Crawley C, Deconinck E, Bulabois CE, Forcade E, Tholouli E, van der Hem JGK, van Balen P, Hoogenboom JD, de Wreede LC, Malard F, Ruggeri A, and Fleischhauer K
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- Humans, Male, Graft vs Host Disease immunology, Histocompatibility Testing methods, Female, Middle Aged, Adult, Leukemia immunology, Acute Disease, Aged, Myelodysplastic Syndromes therapy, Hematopoietic Stem Cell Transplantation, HLA-DP Antigens genetics
- Abstract
Abstract: HLA-DP permissive mismatches can be assigned a direction according to their immunopeptidome divergence across core and noncore subsets. Noncore permissive graft-versus-host mismatches show significantly reduced risks of relapse without increased nonrelapse mortality compared with allele-matched pairs., (© 2024 American Society of Hematology. Published by Elsevier Inc. All rights are reserved, including those for text and data mining, AI training, and similar technologies.)
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- 2024
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11. Human Leukocyte Antigen Mismatching and Survival in Contemporary Hematopoietic Cell Transplantation for Hematologic Malignancies.
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Arrieta-Bolaños E, Bonneville EF, Crivello P, Robin M, Gedde-Dahl T, Salmenniemi U, Kröger N, Yakoub-Agha I, Crawley C, Choi G, Broers AEC, Forcade E, Carre M, Poiré X, Huynh A, Lenhoff S, Ciceri F, Tholouli E, Schroeder T, Deconinck E, Carlson K, de Wreede LC, Hoogenboom JD, Malard F, Ruggeri A, and Fleischhauer K
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- Humans, Middle Aged, Female, Male, Adult, Adolescent, Young Adult, Aged, Child, Cyclophosphamide therapeutic use, Child, Preschool, Hematopoietic Stem Cell Transplantation methods, Hematopoietic Stem Cell Transplantation adverse effects, Hematopoietic Stem Cell Transplantation mortality, Hematologic Neoplasms therapy, Hematologic Neoplasms mortality, Hematologic Neoplasms immunology, HLA Antigens immunology, Graft vs Host Disease immunology, Graft vs Host Disease prevention & control, Graft vs Host Disease mortality, Histocompatibility Testing
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PURPOSEHuman leukocyte antigen (HLA) mismatching can reduce survival of patients with blood cancer after hematopoietic cell transplantation (HCT). How recent advances in HCT practice, in particular graft-versus-host disease (GVHD) prophylaxis by post-transplantation cyclophosphamide (PTCy), influence HLA risk associations is unknown.PATIENTS AND METHODSThe study included 17,292 unrelated HCTs with 6-locus high-resolution HLA typing, performed mainly for acute leukemia or related myeloid neoplasms between 2016 and 2020, including 1,523 transplants with PTCy. HLA risk associations were evaluated by multivariable Cox regression models, with overall survival (OS) as primary end point.RESULTSOS was lower in HLA mismatched compared with fully matched transplants (hazard ratio [HR], 1.23 [99% CI, 1.14 to 1.33]; P < .001). This was driven by class I HLA-A, HLA-B, HLA-C (HR, 1.29 [99% CI, 1.19 to 1.41]; P < .001) but not class II HLA-DRB1 and HLA-DQB1 (HR, 1.07 [99% CI, 0.93 to 1.23]; P = .19). Class I antigen-level mismatches were associated with worse OS than allele-level mismatches (HR, 1.36 [99% CI, 1.24 to 1.49]; P < .001), as were class I graft-versus-host peptide-binding motif (PBM) mismatches compared with matches (HR, 1.42 [99% CI, 1.28 to 1.59]; P < .001). The use of PTCy improved GVHD, relapse-free survival compared with conventional prophylaxis in HLA-matched transplants (HR, 0.77 [0.66 to 0.9]; P < .001). HLA mismatching increased mortality in PTCy transplants (HR, 1.32 [1.04 to 1.68]; P = .003) similarly as in non-PTCy transplants (interaction P = .43).CONCLUSIONClass I but not class II HLA mismatches, especially at the antigen and PBM level, are associated with inferior survival in contemporary unrelated HCT. These effects are not significantly different between non-PTCy compared with PTCy transplants. Optimized HLA matching should still be considered in modern HCT.
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- 2024
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12. From clones to immunopeptidomes: New developments in the characterization of permissive HLA-DP mismatches in hematopoietic cell transplantation.
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Arrieta-Bolaños E
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- Humans, Epitopes, T-Lymphocyte immunology, Unrelated Donors, T-Lymphocytes immunology, Hematopoietic Stem Cell Transplantation, HLA-DP beta-Chains genetics, HLA-DP beta-Chains immunology, Graft vs Host Disease immunology, Histocompatibility Testing methods
- Abstract
Mismatching at the HLA-DPB1 locus occurs frequently in hematopoietic cell transplantation with unrelated donors. Despite this, HLA-DPB1 allelic mismatches have traditionally not been considered in patient-donor matching. A T-cell epitope (TCE) model for the functional assessment of permissive mismatches at this locus has nevertheless been adopted in clinical practice. While initially based on a hierarchical immunogenicity elucidated from allorecognition by T-cell clones isolated from a patient, newer developments in the understanding of this model's biological basis, including a central role for immunopeptidome divergence between mismatched allotypes, have prompted changes in the assignment of permissiveness, providing the opportunity for a more granular evaluation of graft-versus-host disease and relapse risks according to the nature and directionality of permissive mismatches. How these advances impact the assessment of permissiveness at HLA-DPB1 and potentially the intelligent selection of donors according to the main clinical goal for different patients is the subject of the present review., Competing Interests: Declaration of competing interest The author has no conflict of interest to declare., (Copyright © 2024 The Author. Published by Elsevier Ltd.. All rights reserved.)
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- 2024
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13. Hemophagocytic Lymphohistiocytosis Gene Variants in Severe Aplastic Anemia and Their Impact on Hematopoietic Cell Transplantation Outcomes.
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Rafati M, McReynolds LJ, Wang Y, Hicks B, Jones K, Spellman SR, He M, Bolon YT, Arrieta-Bolaños E, Saultz JN, Lee SJ, Savage SA, and Gadalla SM
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- Humans, Female, Male, Adult, Child, Adolescent, Child, Preschool, Young Adult, Middle Aged, Treatment Outcome, Genetic Variation, Infant, Lymphohistiocytosis, Hemophagocytic genetics, Lymphohistiocytosis, Hemophagocytic therapy, Anemia, Aplastic genetics, Anemia, Aplastic therapy, Hematopoietic Stem Cell Transplantation
- Abstract
Germline genetic testing for patients with severe aplastic anemia (SAA) is recommended to guide treatment, including the use of immunosuppressive therapy and/or adjustment of hematopoietic cell transplantation (HCT) modalities. Hemophagocytic lymphohistiocytosis (HLH) is a life-threatening hyperinflammatory condition often associated with cytopenias with autosomal recessive (AR) or X-linked recessive (XLR) inheritance. HLH is part of the SAA differential diagnosis, and genetic testing may identify variants in HLH genes in patients with SAA. The impact of pathogenic/likely pathogenic (P/LP) variants in HLH genes on HCT outcomes in SAA is unclear. In this study, we aimed to determine the frequency of HLH gene variants in a large cohort of patients with acquired SAA and to evaluate their association(s) with HCT outcomes. The Transplant Outcomes in Aplastic Anemia project, a collaboration between the National Cancer Institute and the Center for International Blood and Marrow Transplant Research, collected genomic and clinical data from 824 patients who underwent HCT for SAA between 1989 and 2015. We excluded 140 patients with inherited bone marrow failure syndromes and used exome sequencing data from the remaining 684 patients with acquired SAA to identify P/LP variants in 14 HLH-associated genes (11 AR, 3 XLR) curated using American College of Medical Genetics and Genomics/Association of Molecular Pathology (ACMG/AMP) criteria. Deleterious variants of uncertain significance (del-VUS) were defined as those not meeting the ACMG/AMP P/LP criteria but with damaging predictions in ≥3 of 5 meta-predictors (BayesDel, REVEL, CADD, MetaSVM, and/or EIGEN). The Kaplan-Meier estimator was used to calculate the probability of overall survival (OS) after HCT, and the cumulative incidence calculator was used for other HCT outcomes, accounting for relevant competing risks. There were 46 HLH variants in 49 of the 684 patients (7.2%). Seventeen variants in 19 patients (2.8%) were P/LP; 8 of these were loss-of-function variants. Among the 19 patients with P/LP HLH variants, 16 (84%) had monoallelic variants in genes with AR inheritance, and 3 had variants in XLR genes. PRF1 was the most frequently affected gene (in 8 of the 19 patients). We found no statistically significant differences in transplantation-related factors between patients with and those without P/LP HLH variants. The 5-year survival probability was 89% (95% confidence interval [CI], 72% to 99%) in patients with P/LP HLH variants and 70% (95% CI, 53% to 85%) in those with del-VUS HLH variants, compared to 66% (95% CI, 62% to 70%) in those without variants (P = .16, log-rank test). The median time to neutrophil engraftment was 16 days for patients with P/LP HLH variants and 18 days in those with del-VUS HLH variants or without variants combined (P = .01, Gray's test). No statistically significant associations between P/LP HLH variants and the risk of acute or chronic graft-versus-host disease were noted. In this large cohort of patients with acquired SAA, we found that 2.8% of patients harbored a P/LP variant in an HLH gene. No negative effects of HLH gene variants on post-HCT survival were noted. The small number of patients with P/LP HLH variants limits the study's ability to provide conclusive evidence; nonetheless, our data suggest that there is no need for special transplantation considerations for patients with SAA carrying P/LP variants., (Published by Elsevier Inc.)
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- 2024
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14. The 18th International HLA & Immunogenetics workshop project report: Creating fully representative MHC reference haplotypes.
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Pollock NR, Farias TDJ, Kichula KM, Sauter J, Scholz S, Nii-Trebi NI, Khor SS, Tokunaga K, Voorter CE, Groeneweg M, Augusto DG, Arrieta-Bolaños E, Mayor NP, Edinur HA, ElGhazali G, Issler HC, Petzl-Erler ML, Oksenberg JR, Marin WM, Hollenbach JA, Gendzekhadze K, Cita R, Stelet V, Rajalingam R, Koskela S, Clancy J, Chatzistamatiou T, Houwaart T, Kulski J, Guethlein LA, Parham P, Schmidt AH, Dilthey A, and Norman PJ
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- Humans, Histocompatibility Testing, Major Histocompatibility Complex genetics, Haplotypes, HLA Antigens genetics, Immunogenetics methods
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- 2024
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15. Impact of the HLA Immunopeptidome on Survival of Leukemia Patients After Unrelated Donor Transplantation.
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Crivello P, Arrieta-Bolaños E, He M, Wang T, Fingerson S, Gadalla SM, Paczesny S, Marsh SGE, Lee SJ, Spellman SR, Bolon YT, and Fleischhauer K
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- Humans, Unrelated Donors, Prospective Studies, HLA-A Antigens, Histocompatibility Testing, Retrospective Studies, HLA Antigens, Hematopoietic Stem Cell Transplantation, Leukemia, Myeloid, Acute, Graft vs Host Disease
- Abstract
Purpose: Immunopeptidome divergence between mismatched HLA-DP is a determinant of T-cell alloreactivity and clinical tolerability after fully HLA-A, -B, -C, -DRB1, -DQB1 matched unrelated donor hematopoietic cell transplantation (UD-HCT). Here, we tested this concept in HLA-A, -B, and -C disparities after single class I HLA-mismatched UD-HCT., Patients and Methods: We studied 2,391 single class I HLA-mismatched and 14,426 fully HLA-matched UD-HCT performed between 2008 and 2018 for acute leukemia or myelodysplastic syndromes. Hierarchical clustering of experimentally determined peptide-binding motifs (PBM) was used as a proxy for immunopeptidome divergence of HLA-A, -B, or -C disparities, allowing us to classify 1,629/2,391 (68.1%) of the HLA-mismatched UD-HCT as PBM-matched or PBM-mismatched. Risks associated with PBM-matching status were assessed by Cox proportional hazards models, with overall survival (OS) as the primary end point., Results: Relative to full matches, bidirectional or unidirectional PBM mismatches in graft-versus-host (GVH) direction (PBM-GVH mismatches, 60.7%) were associated with significantly lower OS (hazard ratio [HR], 1.48; P < .0001), while unidirectional PBM mismatches in host-versus-graft direction or PBM matches (PBM-GVH matches, 39.3%) were not (HR, 1.13; P = .1017). PBM-GVH mismatches also had significantly lower OS than PBM-GVH matches in direct comparison (HR, 1.32; P = .0036). The hazards for transplant-related mortality and acute and chronic graft-versus-host disease but not relapse increased stepwise from full HLA matches to single PBM-GVH matches, and single PBM-GVH mismatches. A webtool for PBM-matching of single class I HLA-mismatched donor-recipient pairs was developed., Conclusion: PBM-GVH mismatches inform mortality risks after single class I HLA-mismatched UD-HCT, suggesting that prospective consideration of directional PBM-matching status might improve outcome. These findings highlight immunopeptidome divergence between mismatched HLA as a driver of clinical tolerability in UD-HCT.
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- 2023
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16. An HLA map of the world: A comparison of HLA frequencies in 200 worldwide populations reveals diverse patterns for class I and class II.
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Arrieta-Bolaños E, Hernández-Zaragoza DI, and Barquera R
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HLA frequencies show widespread variation across human populations. Demographic factors as well as selection are thought to have shaped HLA variation across continents. In this study, a worldwide comparison of HLA class I and class II diversity was carried out. Multidimensional scaling techniques were applied to 50 HLA-A and HLA-B (class I) as well as 13 HLA-DRB1 (class II) first-field frequencies in 200 populations from all continents. Our results confirm a strong effect of geography on the distribution of HLA class I allele groups, with principal coordinates analysis closely resembling geographical location of populations, especially those of Africa-Eurasia. Conversely, class II frequencies stratify populations along a continuum of differentiation less clearly correlated to actual geographic location. Double clustering analysis revealed finer intra-continental sub-clusters (e.g., Northern and Western Europe vs. South East Europe, North Africa and Southwest Asia; South and East Africa vs. West Africa), and HLA allele group patterns characteristic of these clusters. Ancient (Austronesian expansion) and more recent (Romani people in Europe) migrations, as well as extreme differentiation (Taiwan indigenous peoples, Native Americans), and interregional gene flow (Sámi, Egyptians) are also reflected by the results. Barrier analysis comparing D
ST and geographic location identified genetic discontinuities caused by natural barriers or human behavior explaining inter and intra-continental HLA borders for class I and class II. Overall, a progressive reduction in HLA diversity from African to Oceanian and Native American populations is noted. This analysis of HLA frequencies in a unique set of worldwide populations confirms previous findings on the remarkable similarity of class I frequencies to geography, but also shows a more complex development for class II, with implications for both human evolutionary studies and biomedical research., Competing Interests: The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest., (Copyright © 2023 Arrieta-Bolaños, Hernández-Zaragoza and Barquera.)- Published
- 2023
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17. Time series clustering of T cell subsets dissects heterogeneity in immune reconstitution and clinical outcomes among MUD-HCT patients receiving ATG or PTCy.
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Leserer S, Graf T, Franke M, Bogdanov R, Arrieta-Bolaños E, Buttkereit U, Leimkühler N, Fleischhauer K, Reinhardt HC, Beelen DW, and Turki AT
- Subjects
- Humans, Time Factors, Antilymphocyte Serum, Cyclophosphamide, T-Lymphocyte Subsets, Immune Reconstitution, Hematopoietic Stem Cell Transplantation adverse effects, Graft vs Host Disease
- Abstract
Introduction: Anti-T-lymphocyte globulin (ATG) or post-transplant cyclophosphamide (PTCy) prevent graft-versus-host disease (GVHD) after hematopoietic cell transplantation (HCT), yet individual patients benefit differentially., Methods: Given the sparse comparative data on the impact of cellular immune reconstitution in this setting, we studied flow cytometry and clinical outcomes in 339 recipients of 10/10 matched-unrelated donor (MUD) HCT using either ATG (n=304) or PTCy (n=35) for in vivo T cell manipulation along with a haploidentical PTCy control cohort (n=45). Longitudinal cellular immune reconstitution data were analyzed conventionally and with a data science approach using clustering with dynamic time warping to determine the similarity between time-series of T cell subsets., Results: Consistent with published studies, no significant differences in clinical outcomes were observed at the cohort level between MUD-ATG and MUD-PTCy. However, cellular reconstitution revealed preferences for distinct T cell subpopulations associating with GVHD protection in each setting. Starting early after HCT, MUD-PTCy patients had higher regulatory T cell levels after HCT (p <0.0001), while MUD-ATG patients presented with higher levels of γδ T- or NKT cells (both p <0.0001). Time-series clustering further dissected the patient population's heterogeneity revealing distinct immune reconstitution clusters. Importantly, it identified phenotypes that reproducibly associated with impaired clinical outcomes within the same in vivo T cell manipulation platform. Exemplarily, patients with lower activated- and αβ T cell counts had significantly higher NRM (p=0.032) and relapse rates (p =0.01)., Discussion: The improved understanding of the heterogeneity of cellular reconstitution in MUD patients with T cell manipulation both at the cohort and individual level may support clinicians in managing HCT complications., Competing Interests: ATT: Consultancy for CSL Behring and Maat Pharma. DB received travel subsidies from Medac, all outside the submitted work. HCR received consulting and lecture fees from Abbvie, AstraZeneca, Vertex, Novartis, and Merck. HCR received research funding from Gilead Pharmaceuticals and AstraZeneca. HCR is a co-founder and shareholder of CDL Therapeutics GmbH. The remaining authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest., (Copyright © 2023 Leserer, Graf, Franke, Bogdanov, Arrieta-Bolaños, Buttkereit, Leimkühler, Fleischhauer, Reinhardt, Beelen and Turki.)
- Published
- 2023
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18. A core group of structurally similar HLA-DPB1 alleles drives permissiveness after hematopoietic cell transplantation.
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Arrieta-Bolaños E, Crivello P, He M, Wang T, Gadalla SM, Paczesny S, Marsh SGE, Lee SJ, Spellman SR, Bolon YT, and Fleischhauer K
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- Alleles, HLA-DP Antigens, HLA-DP beta-Chains genetics, Histocompatibility Testing, Hematopoietic Stem Cell Transplantation, Permissiveness
- Published
- 2022
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19. Combined Analysis of Early CD4 + T Cell Counts and CMV Serostatus May Improve CMV Risk Assessment after Allogeneic Hematopoietic Cell Transplantation.
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Leserer S, Arrieta-Bolaños E, Buttkereit U, Beelen DW, and Turki AT
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- Adolescent, Adult, Aged, Cytomegalovirus Infections epidemiology, Cytomegalovirus Infections therapy, Female, Humans, Incidence, Lymphocyte Count, Male, Middle Aged, Prognosis, Transplantation, Homologous, Young Adult, CD4-Positive T-Lymphocytes immunology, Cytomegalovirus immunology, Cytomegalovirus Infections immunology, Cytomegalovirus Infections virology, Hematopoietic Stem Cell Transplantation, Risk Assessment
- Abstract
The incidence and severity of viral complications after cellular therapy are highly variable. Recent publications describe relevant interactions between the human Cytomegalovirus (CMV) and host immunity in recipients of allogeneic hematopoietic cell transplantation (HCT). Although immune monitoring is routinely performed in HCT patients, validated cut-off levels correlating with transplant outcomes such as survival or CMV reactivation are mostly limited to day +100, which is later than the median time for CMV reactivation in the absence of medical prophylaxis. To address this gap in early risk assessment, we applied an unsupervised machine learning technique based on clustering of day +30 CD4
+ helper T cell count data, and identified relevant cut-off levels within the diverse spectrum of early CD4+ reconstitution. These clusters were stratified for CMV recipient serostatus to identify early risk groups that predict clinical HCT outcome. Indeed, the new risk groups predicted subsequent clinical events such as NRM, OS, and high CMV peak titers better than the most established predictor, i.e., the positive CMV recipient serostatus (R+). More specifically, patients from the R+/low CD4+ subgroup strongly associated with high CMV peak titers and increased 3-year NRM (subdistribution hazard ratio (SHR) 10.1, 95% CI 1.38-73.8, p = 0.023), while patients from the R-/very high CD4+ subgroup showed comparable NRM risks (SHR 9.57, 95% CI 1.12-81.9, p = 0.039) without such an association. In short, our study established novel cut-off levels for early CD4+ T cells via unsupervised learning and supports the integration of host cellular immunity into clinical risk-assessment after HCT in the context of CMV reactivation.- Published
- 2021
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20. Cytomegalovirus kinetics after hematopoietic cell transplantation reveal peak titers with differential impact on mortality, relapse and immune reconstitution.
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Leserer S, Bayraktar E, Trilling M, Bogdanov R, Arrieta-Bolaños E, Tsachakis-Mück N, Crivello P, Koldehoff M, Maaßen F, Ross RS, Fleischhauer K, Beelen DW, and Turki AT
- Subjects
- Adolescent, Adult, Aged, Allografts, Cytomegalovirus physiology, Cytomegalovirus Infections immunology, Female, Follow-Up Studies, Humans, Immune Reconstitution, Kaplan-Meier Estimate, Kinetics, Male, Middle Aged, Proportional Hazards Models, Recurrence, Retrospective Studies, Viremia immunology, Virus Activation, Young Adult, Cytomegalovirus isolation & purification, Cytomegalovirus Infections virology, Hematopoietic Stem Cell Transplantation, Viral Load, Viremia virology
- Abstract
Even in the era of PCR-based monitoring, prophylaxis, and preemptive therapy, Cytomegalovirus (CMV) viremia remains a relevant cause of non-relapse mortality (NRM) after allogeneic hematopoietic cell transplantation (HCT). However, studies using binary analysis (presence/absence of CMV) reported contradicting data for NRM, overall survival and leukemia relapse. Here, we analyzed CMV replication kinetics in 11 508 whole blood PCR samples of 705 patients with HCT between 2012 and 2017. Using two independent models based on CMV peak titers and on the time point of first CMV reactivation, we stratified patients into risk cohorts. Each cohort had distinct cellular immune reconstitution profiles and differentiated for relevant clinical outcomes. Patients with high CMV peak titers had significantly reduced overall survival (HR 2.13, 95% CI 1.53-2.96; p < .0001), due to high NRM. Early impaired T cell reconstitution was a risk factor for high CMV peak titers, however relevant CMV viremia also related to boosted T cell reconstitution. Importantly, intermediate CMV peak titers associated with a significantly reduced relapse probability (HR 0.53, 95% CI 0.31-0.91; p = .022). In short, CMV kinetics models distinguished relevant clinical outcome cohorts beyond the R+ serostatus with distinct immune reconstitution patterns and resolve in part contradicting results of previous studies exclusively focused on the presence or absence of CMV., (© 2021 The Authors. American Journal of Hematology published by Wiley Periodicals LLC.)
- Published
- 2021
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21. Permissive HLA-DPB1 mismatches in HCT depend on immunopeptidome divergence and editing by HLA-DM.
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Meurer T, Crivello P, Metzing M, Kester M, Megger DA, Chen W, van Veelen PA, van Balen P, Westendorf AM, Homa G, Layer SE, Turki AT, Griffioen M, Horn PA, Sitek B, Beelen DW, Falkenburg JHF, Arrieta-Bolaños E, and Fleischhauer K
- Subjects
- Allografts, Antigens, Differentiation, B-Lymphocyte metabolism, CD4-Positive T-Lymphocytes immunology, Cells, Cultured, Endosomes metabolism, Epitopes metabolism, Gene Rearrangement, alpha-Chain T-Cell Antigen Receptor, Gene Rearrangement, beta-Chain T-Cell Antigen Receptor, HeLa Cells, Hematopoietic Stem Cell Transplantation, High-Throughput Nucleotide Sequencing, Histocompatibility genetics, Histocompatibility Antigens Class II metabolism, Humans, Mass Spectrometry, Molecular Chaperones, Peptides metabolism, Receptors, Antigen, T-Cell, alpha-beta genetics, Unrelated Donors, Epitopes immunology, HLA-D Antigens immunology, HLA-DP beta-Chains immunology, Histocompatibility immunology, Peptides immunology, Receptors, Antigen, T-Cell, alpha-beta immunology
- Abstract
In hematopoietic cell transplantation (HCT), permissive HLA-DPB1 mismatches between patients and their unrelated donors are associated with improved outcomes compared with nonpermissive mismatches, but the underlying mechanism is incompletely understood. Here, we used mass spectrometry, T-cell receptor-β (TCRβ) deep sequencing, and cellular in vitro models of alloreactivity to interrogate the HLA-DP immunopeptidome and its role in alloreactive T-cell responses. We find that permissive HLA-DPB1 mismatches display significantly higher peptide repertoire overlaps compared with their nonpermissive counterparts, resulting in lower frequency and diversity of alloreactive TCRβ clonotypes in healthy individuals and transplanted patients. Permissiveness can be reversed by the absence of the peptide editor HLA-DM or the presence of its antagonist, HLA-DO, through significant broadening of the peptide repertoire. Our data establish the degree of immunopeptidome divergence between donor and recipient as the mechanistic basis for the clinically relevant permissive HLA-DPB1 mismatches in HCT and show that permissiveness is dependent on HLA-DM-mediated peptide editing. Its key role for harnessing T-cell alloreactivity to HLA-DP highlights HLA-DM as a potential novel target for cellular and immunotherapy of leukemia., (© 2021 by The American Society of Hematology.)
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- 2021
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22. Genetic diversity of HLA system in a population sample from Aguascalientes, Mexico.
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Bravo-Acevedo A, Barquera R, Arrieta-Bolaños E, Hernández-Zaragoza DI, Clayton S, Goné-Vázquez I, Escobedo-Ruíz A, Pantoja-Torres JA, Adalid-Sáinz C, Pacheco-Ubaldo H, Martínez-Álvarez JC, González-Martínez MDR, Lona-Sánchez A, González-Medina L, Escareño-Montiel N, Arrazola-García MA, Juárez-Barreto V, Benítez-Arvizu G, Delgado-Aguirre H, Sánchez-Fernández MGJ, Sandoval-Sandoval MJ, Jaramillo-Rodríguez Y, Gómez-Navarro B, Salgado-Adame A, Juárez-de la Cruz F, Zúñiga J, Yunis EJ, Bekker-Méndez C, and Granados J
- Subjects
- Alleles, Ethnicity, Gene Frequency, Geography, Haplotypes, Humans, Linkage Disequilibrium, Mexico, Genetic Variation, Genetics, Population, HLA Antigens genetics
- Abstract
We studied HLA class I (HLA-A, -B) and class II (HLA-DRB1, -DQB1) alleles by PCR-SSP based typing in 95 Mexicans from the state of Aguascalientes to obtain information regarding allelic and haplotypic frequencies and their linkage disequilibrium. We find that the most frequent haplotypes in the state of Aguascalientes include four Native American, three European and one Asian haplotypes. Admixture estimates revealed that the main genetic components in the state of Aguascalientes are Native American (54.53 ± 3.22% by ML; 44.21% of Native American haplotypes) and European (44.34 ± 0.45% by ML; 40.53% of European haplotypes), and a relatively low African genetic component (1.13 ± 2.33% by ML; 5.26% of African haplotypes)., (Copyright © 2019 American Society for Histocompatibility and Immunogenetics. Published by Elsevier Inc. All rights reserved.)
- Published
- 2020
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23. Genetic diversity of HLA system in two populations from Querétaro, Mexico: Querétaro city and rural Querétaro.
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Martínez-Álvarez JC, Barquera R, Hernández-Zaragoza DI, Bravo-Acevedo A, Clayton S, Arrieta-Bolaños E, Immel A, Benítez-Arvizu G, Arrazola-García MA, Juárez-Barreto V, Vega-Martínez MDR, Juárez-Nicolás F, Escutia-González AB, Martínez-Bezies V, García-Álvarez R, Salgado-Galicia N, Zúñiga J, Yunis EJ, Bekker-Méndez C, and Granados J
- Subjects
- Alleles, Gene Frequency, Genotype, Geography, Haplotypes, Humans, Linkage Disequilibrium, Mexico, Rural Population, Ethnicity genetics, Genetic Variation, Genetics, Population, HLA Antigens genetics
- Abstract
We studied HLA class I (HLA-A, -B) and class II (HLA-DRB1, -DQB1) alleles by PCR-SSP based typing in 88 Mexicans from the state of Querétaro living in the city of Querétaro (N = 45) and rural communities (N = 43), to obtain information regarding allelic and haplotypic frequencies. We find that the most frequent haplotypes in the state of Querétaro include seven Native American, two European and one Asian haplotype. Admixture estimates revealed that the main genetic components in the state of Querétaro are Native American (51.82 ± 4.42% by ML; 42.61% of Native American haplotypes) and European (48.18 ± 3.55% by ML; 46.02% of European haplotypes), with a virtually absent African genetic component (0.00 ± 4.25% by ML; 4.55% of African haplotypes)., (Copyright © 2019 American Society for Histocompatibility and Immunogenetics. Published by Elsevier Inc. All rights reserved.)
- Published
- 2020
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24. Genetic diversity of HLA system in two populations from Nuevo León, Mexico: Monterrey and rural Nuevo León.
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Barquera R, Bravo-Acevedo A, Clayton S, Munguía TJR, Hernández-Zaragoza DI, Adalid-Sáinz C, Arrieta-Bolaños E, Aquino-Rubio G, González-Martínez MDR, Lona-Sánchez A, Martínez-Álvarez JC, Arrazola-García MA, Delgado-Aguirre H, González-Medina L, Pacheco-Ubaldo H, Juárez-Barreto V, Benítez-Arvizu G, Escareño-Montiel N, Juárez-de la Cruz F, Jaramillo-Rodríguez Y, Salgado-Adame A, Zúñiga J, Yunis EJ, Bekker-Méndez C, and Granados J
- Subjects
- Alleles, Gene Frequency, Geography, Haplotypes, Humans, Linkage Disequilibrium, Mexico, Rural Population, Ethnicity genetics, Genetic Variation, Genetics, Population, HLA Antigens genetics
- Abstract
We studied HLA class I (HLA-A, -B) and class II (HLA-DRB1, -DQB1) alleles by PCR-SSP based typing in 665 Mexicans from the state of Nuevo León living in the city of Monterrey (N = 226) and rural communities (N = 439), to obtain information regarding allelic and haplotypic frequencies. We find that the most frequent haplotypes in the state of Nuevo León include 12 Native American and three European haplotypes. Admixture estimates revealed that the main genetic components in the state of Nuevo León are Native American (54.53 ± 0.87% by ML; 48.88% of Native American haplotypes) and European (38.67 ± 4.06% by ML; 32.59% of European haplotypes), and a less prominent African genetic component (6.80 ± 4.30% by ML; 8.26% of African haplotypes)., (Copyright © 2019 American Society for Histocompatibility and Immunogenetics. Published by Elsevier Inc. All rights reserved.)
- Published
- 2020
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25. Genetic diversity of HLA system in six populations from Mexico City Metropolitan Area, Mexico: Mexico City North, Mexico City South, Mexico City East, Mexico City West, Mexico City Center and rural Mexico City.
- Author
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Barquera R, Martínez-Álvarez JC, Hernández-Zaragoza DI, Bravo-Acevedo A, Juárez-Nicolás F, Arriaga-Perea AJ, Vega-Martínez MDR, Ortega-Yáñez A, Benítez-Arvizu G, Arrieta-Bolaños E, Clayton S, Juárez-Cortés ED, López-Gil C, García-Álvarez R, Arrazola-García MA, Martínez-Bezies V, Juárez-Barreto V, Ramos-de la Cruz FDR, Macías-Medrano RM, Méndez-Mani P, Escutia-González A, Montiel-Hernández GD, Immel A, Pavón-Vargas MLÁ, Salgado-Galicia N, Novelo-Garza B, Zúñiga J, Yunis EJ, Bekker-Méndez C, and Granados J
- Subjects
- Alleles, Cities, Gene Frequency, Geography, Haplotypes, Humans, Linkage Disequilibrium, Mexico, Rural Population, Ethnicity genetics, Genetic Variation, Genetics, Population, HLA Antigens genetics
- Abstract
We studied HLA class I (HLA-A, -B) and class II (HLA-DRB1, -DQB1) alleles by PCR-SSP based typing in 1217 Mexicans from the Mexico City Metropolitan Area living in the northern (N = 751), southern (N = 52), eastern (N = 79), western (N = 33), and central (N = 152) Mexico City, and rural communities (N = 150), to obtain information regarding allelic and haplotypic frequencies. We found that the most frequent haplotypes include 11 Native American haplotypes. Admixture estimates revealed that the main genetic components are Native American (63.85 ± 1.55% by ML; 57.19% of Native American haplotypes) and European (28.53 ± 3.13% by ML; 28.40% of European haplotypes), and a less apparent African genetic component (7.61 ± 1.96% by ML; 7.17% of African haplotypes)., (Copyright © 2019 American Society for Histocompatibility and Immunogenetics. Published by Elsevier Inc. All rights reserved.)
- Published
- 2020
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26. Genetic diversity of HLA system in three populations from Chihuahua, Mexico: Chihuahua City, Ciudad Juárez and rural Chihuahua.
- Author
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Pacheco-Ubaldo H, Adalid-Sáinz C, Barquera R, Clayton S, Arrieta-Bolaños E, Delgado-Aguirre H, González-Medina L, Hernández-Zaragoza DI, Escareño-Montiel N, Morán-Martínez J, Bravo-Acevedo A, Lona-Sánchez A, González-Martínez MDR, Jaramillo-Rodríguez Y, Salgado-Adame A, Juárez-de la Cruz F, Zúñiga J, Yunis EJ, Bekker-Méndez C, and Granados J
- Subjects
- Alleles, Gene Frequency, Genotype, Geography, Haplotypes, Humans, Linkage Disequilibrium, Mexico, Rural Population, Ethnicity genetics, Genetic Variation, Genetics, Population methods, HLA Antigens genetics
- Abstract
We studied HLA class I (HLA-A, -B) and class II (HLA-DRB1, -DQB1) alleles by PCR-SSP based typing in 461 Mexicans from the state of Chihuahua living in Chihuahua city (N = 119), Ciudad Juárez (N = 106) and rural communities (N = 236), to obtain information regarding allelic and haplotypic frequencies and their linkage disequilibrium. We find that the most frequent haplotypes found in the state of Chihuahua include seven Native American and three European haplotypes. Admixture estimates revealed that the main genetic components in Chihuahua are European (52.12 ± 0.88% by ML; 41.53% of European haplotypes) and Native American (39.51 ± 2.17% by ML; 37.45% of Native American haplotypes), while African genetic component was less apparent (8.36 ± 1.47% by ML; 11.70% of African haplotypes)., (Copyright © 2019 American Society for Histocompatibility and Immunogenetics. Published by Elsevier Inc. All rights reserved.)
- Published
- 2020
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27. Genetic diversity of HLA system in three populations from Guanajuato, Mexico: Guanajuato City, León and rural Guanajuato.
- Author
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Pantoja-Torres JA, Barquera R, Ballesteros-Romero M, Bravo-Acevedo A, Arrieta-Bolaños E, Montiel-Hernández GD, Clayton S, Rodríguez-Rodríguez LI, Hernández-Zaragoza DI, Goné-Vázquez I, Escobedo-Ruíz A, García-Arias VE, Arellano-Prado FP, Rodríguez-López ME, Sánchez-Fernández MGJ, Sandoval-Sandoval MJ, Gómez-Navarro B, Zúñiga J, Yunis EJ, Bekker-Méndez C, and Granados J
- Subjects
- Alleles, Gene Frequency, Geography, Haplotypes, Humans, Linkage Disequilibrium, Mexico, Rural Population, Ethnicity genetics, Genetic Variation, Genetics, Population, HLA Antigens genetics
- Abstract
We studied HLA class I (HLA-A, -B) and class II (HLA-DRB1, -DQB1) alleles by PCR-SSP based typing in 262 Mexicans from the state of Guanajuato living in the cities of Guanajuato (N = 78), León (N = 22) and rural communities (N = 162), to obtain information regarding allelic and haplotypic frequencies. We find that the most frequent haplotypes found in the state of Guanajuato include 12 Native American and three European haplotypes. Admixture estimates revealed that the main genetic components in the state of Guanajuato are Native American (50.64 ± 2.11% by ML, 43.35% of Native American haplotypes) and European (44.14 ± 1.14% by ML; 39.35% of European haplotypes), while African genetic component is less apparent (5.22 ± 2.08% by ML; 8.36% of African haplotypes)., (Copyright © 2019 American Society for Histocompatibility and Immunogenetics. Published by Elsevier Inc. All rights reserved.)
- Published
- 2020
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28. Genetic diversity of HLA system in two populations from Tamaulipas, Mexico: Ciudad Victoria and rural Tamaulipas.
- Author
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Rodríguez-Munguía TJ, Barquera R, Adalid-Sáinz C, Hernández-Zaragoza DI, Arrieta-Bolaños E, Clayton S, Aquino-Rubio G, González-Martínez MDR, Pacheco-Ubaldo H, González-Medina L, Lona-Sánchez A, Bravo-Acevedo A, Delgado-Aguirre H, Escareño-Montiel N, Jaramillo-Rodríguez Y, Salgado-Adame A, Juárez-de la Cruz F, Zúñiga J, Yunis EJ, Bekker-Méndez C, and Granados J
- Subjects
- Alleles, Gene Frequency, Geography, Haplotypes, Humans, Linkage Disequilibrium, Mexico, Rural Population, Ethnicity genetics, Genetic Variation, Genetics, Population, HLA Antigens genetics
- Abstract
We studied HLA class I (HLA-A, -B) and class II (HLA-DRB1, -DQB1) alleles by PCR-SSP based typing in 148 Mexicans from the state of Tamaulipas living in Ciudad Victoria (N = 23) and rural communities (N = 125), to obtain information regarding allelic and haplotypic frequencies. We found that the most frequent haplotypes in the state of Tamaulipas include ten Native American, three European and one African haplotypes. Admixture estimates revealed that the main genetic components in the state of Tamaulipas are Native American (54.69 ± 0.93% by ML; 47.65% of Native American haplotypes) and European (34.66 ± 5.62% by ML; 33.56% of European haplotypes), and a relatively high African genetic component (10.65 ± 5.05% by ML; 12.42% of African haplotypes)., (Copyright © 2019 American Society for Histocompatibility and Immunogenetics. Published by Elsevier Inc. All rights reserved.)
- Published
- 2020
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29. Genetic diversity of HLA system in three populations from Coahuila, Mexico: Torreón, Saltillo and rural Coahuila.
- Author
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Adalid-Sáinz C, Barquera R, Crawford MH, Lona-Sánchez A, Clayton S, Arrieta-Bolaños E, Delgado-Aguirre H, González-Medina L, Pacheco-Ubaldo H, Hernández-Zaragoza DI, Bravo-Acevedo A, Escareño-Montiel N, Morán-Martínez J, González-Martínez MDR, Jaramillo-Rodríguez Y, Salgado-Adame A, Juárez-de la Cruz F, Zúñiga J, Yunis EJ, Bekker-Méndez C, and Granados J
- Subjects
- Gene Frequency, Genetics, Population, Haplotypes, Humans, Linkage Disequilibrium, Mexico, Rural Population, Alleles, Ethnicity genetics, Genetic Variation, HLA Antigens genetics
- Abstract
We studied HLA class I (HLA-A, -B) and class II (HLA-DRB1, -DQB1) alleles by PCR-SSP based typing in 684 Mexicans from the state of Coahuila living in Saltillo (N = 72), Torreón (N = 396) and rural communities (N = 216), to obtain information regarding allelic and haplotypic frequencies. We find that the ten most frequent haplotypes found in the state of Coahuila include eight Native American and two European haplotypes. Admixture estimates revealed that the main genetic components in the state of Coahuila are European (49.72 ± 4.18% by ML; 37.49% of European haplotypes) and Native American (45.01 ± 2.69% by ML; 42.98% of Native American haplotypes), while African genetic component is less apparent (5.27 ± 1.88% by ML; 9.92% of African haplotypes)., (Copyright © 2019 American Society for Histocompatibility and Immunogenetics. Published by Elsevier Inc. All rights reserved.)
- Published
- 2020
- Full Text
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30. Genetic diversity of HLA system in two populations from Chiapas, Mexico: Tuxtla Gutiérrez and rural Chiapas.
- Author
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Barquera R, Juárez-Nicolás F, Martínez-Álvarez JC, Ponnandai-Shanmugavel KS, Hernández-Zaragoza DI, Vázquez-Castillo TV, Arrieta-Bolaños E, Clayton S, Solís-Martínez R, Ortega-Yáñez A, Arrazola-García MA, Immel A, Bravo-Acevedo A, Vega-Martínez MDR, Benítez-Arvizu G, García-Álvarez R, Martínez-Bezies V, Escutia-González A, Juárez-Barreto V, Salgado-Galicia N, Novelo-Garza B, Zúñiga J, Yunis EJ, Bekker-Méndez C, and Granados J
- Subjects
- Alleles, Cities, Gene Frequency, Geography, Haplotypes, Humans, Linkage Disequilibrium, Mexico, Rural Population, Ethnicity genetics, Genetic Variation, Genetics, Population, HLA Antigens genetics
- Abstract
We studied HLA class I (HLA-A, -B) and class II (HLA-DRB1, -DQB1) alleles by PCR-SSP based typing in 173 Mexicans from the state of Chiapas living in the city of Tuxtla Gutiérrez (N = 52) and rural communities (N = 121), to obtain information regarding allelic and haplotypic frequencies. We found that the most frequent haplotypes in Chiapas include 12 Native American and one European haplotype. Admixture estimates revealed that the main genetic components in Chiapas are Native American (71.61 ± 0.58% by ML; 53.16% of Native American haplotypes) and European (26.39 ± 5.05% by ML; 25.86% of European haplotypes), and a less prominent African genetic component (2.00 ± 5.20% by ML; 9.77% of African haplotypes)., (Copyright © 2019 American Society for Histocompatibility and Immunogenetics. Published by Elsevier Inc. All rights reserved.)
- Published
- 2020
- Full Text
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31. Genetic diversity of HLA system in two populations from Tabasco, Mexico: Villahermosa and rural Tabasco.
- Author
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Solís-Martínez R, Barquera R, Ponnandai-Shanmugavel KS, Vega-Martínez MDR, Vázquez-Castillo TV, Arrieta-Bolaños E, Clayton S, Hernández-Zaragoza DI, Bravo-Acevedo A, Immel A, Salgado-Galicia N, Zúñiga J, Yunis EJ, Bekker-Méndez C, and Granados J
- Subjects
- Alleles, Cities, Gene Frequency, Geography, Haplotypes, Humans, Linkage Disequilibrium, Mexico, Rural Population, Ethnicity genetics, Genetic Variation, Genetics, Population, HLA Antigens genetics
- Abstract
We studied HLA class I (HLA-A, -B) and class II (HLA-DRB1, -DQB1) alleles by PCR-SSP based typing in 224 Mexicans from the state of Tabasco living in the city of Villahermosa (N = 82) and rural communities (N = 142), to obtain information regarding allelic and haplotypic frequencies. We found that the most frequent haplotypes in Tabasco include 13 Native American and two European haplotypes. Admixture estimates revealed that the main genetic components in Tabasco are Native American (67.79 ± 1.59% by ML; 56.25% of Native American haplotypes) and European (27.21 ± 3.97% by ML; 29.91% of European haplotypes), and a less prominent African genetic component (5.01 ± 4.42% by ML; 8.93% of African haplotypes)., (Copyright © 2019 American Society for Histocompatibility and Immunogenetics. Published by Elsevier Inc. All rights reserved.)
- Published
- 2020
- Full Text
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32. Genetic diversity of HLA system in two populations from Sinaloa, Mexico: Culiacán and rural Sinaloa.
- Author
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Clayton S, Barquera R, Uribe-Duarte MG, Goné Vázquez I, Zúñiga J, Arrieta-Bolaños E, Hernández-Zaragoza DI, Ruíz-Corral MJ, Escobedo-Ruíz A, Arellano-Prado FP, García-Arias VE, Rodríguez-López ME, Bravo-Acevedo A, Sánchez-Fernández MGJ, Aguilar-Campos JA, Serrano-Osuna R, Gómez-Navarro B, Sandoval-Sandoval MJ, Yunis EJ, Bekker-Méndez C, and Granados J
- Subjects
- Alleles, Gene Frequency, Genotype, Geography, Haplotypes, Humans, Immunogenetics, Mexico, Rural Population, Ethnicity genetics, Genetic Variation, Genetics, Population, HLA Antigens genetics
- Abstract
We studied HLA class I (HLA-A, -B) and class II (HLA-DRB1, -DQB1) alleles by PCR-SSP based typing in 286 Mexicans from the state of Sinaloa living in Culiacán (N = 103) and rural communities (N = 183) to obtain information regarding allelic and haplotypic frequencies. We find that the most frequent haplotypes for the state of Sinaloa include ten Native American most probable ancestry and five European most probable ancestry haplotypes. The admixture estimates revealed that the main genetic components in the state of Sinaloa are European (62.39 ± 3.47%) and Native American (37.61 ± 2.85%), while the African genetic component was estimated as virtually absent (0.00 ± 1.86%)., (Copyright © 2019 American Society for Histocompatibility and Immunogenetics. Published by Elsevier Inc. All rights reserved.)
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- 2020
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33. Genetic diversity of HLA system in four populations from Baja California, Mexico: Mexicali, La Paz, Tijuana and rural Baja California.
- Author
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Escobedo-Ruíz A, Barquera R, González-Martín A, Argüelles-San Millán JM, Uribe-Duarte MG, Hernández-Zaragoza DI, Clayton S, Arrieta-Bolaños E, Ruíz-Corral MJ, Goné-Vázquez I, Arellano-Prado FP, Martínez-Álvarez JC, García-Arias VE, Rodríguez-López ME, Bravo-Acevedo A, Sánchez-Fernández MGJ, Aguilar-Campos JA, Gómez-Navarro B, Sandoval-Sandoval MJ, Serrano-Osuna R, Yunis EJ, Zúñiga J, Bekker-Méndez C, and Granados J
- Subjects
- Alleles, Gene Frequency, Genotype, Geography, Medical, Haplotypes, Humans, Linkage Disequilibrium, Mexico, Multilocus Sequence Typing, Ethnicity genetics, Genetic Variation, Genetics, Population, HLA Antigens genetics
- Abstract
We studied HLA class I (HLA-A, -B) and class II (HLA-DRB1, -DQB1) alleles by PCR-SSP based typing in 250 Mexicans from the states of Baja California Norte and Baja California Sur living in Mexicali (N = 100), La Paz (N = 75), Tijuana (N = 25) and rural communities (N = 50) to obtain information regarding allelic and haplotypic frequencies. The most frequent haplotypes for the Baja California region include nine Native American and five European haplotypes. Admixture estimates revealed that the main genetic components are European (50.45 ± 1.84% by ML; 42.03% of European haplotypes) and Native American (43.72 ± 2.36% by ML; 40.24% of Native American haplotypes), while the African genetic component was less apparent (5.83 ± 0.98% by ML; 9.36% of African haplotypes)., (Copyright © 2019 American Society for Histocompatibility and Immunogenetics. Published by Elsevier Inc. All rights reserved.)
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- 2020
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34. Genetic diversity of HLA system in a population from Guerrero, Mexico.
- Author
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Juárez-Nicolás F, Barquera R, Martínez-Álvarez JC, Hernández-Zaragoza DI, Ortega-Yáñez A, Arrieta-Bolaños E, Clayton S, Bravo-Acevedo A, Arrazola-García MA, Immel A, Juárez-Barreto V, Benítez-Arvizu G, Vega-Martínez MDR, García-Álvarez R, Martínez-Bezies V, Escutia-González AB, Díaz-López R, Guizar-López GU, Salgado-Galicia N, Zúñiga J, Yunis EJ, Bekker-Méndez C, and Granados J
- Subjects
- Alleles, Gene Frequency, Genotype, Geography, Haplotypes, Humans, Linkage Disequilibrium, Mexico, Ethnicity genetics, Genetic Variation, Genetics, Population, HLA Antigens genetics
- Abstract
We studied HLA class I (HLA-A, -B) and class II (HLA-DRB1, -DQB1) alleles by PCR-SSP based typing in 144 Mexicans from the state of Guerrero to obtain information regarding allelic and haplotypic frequencies. We find that the ten most frequent haplotypes in the state of Guerrero include eight Native American and two European haplotypes. Admixture estimates revealed that the main genetic components in the state of Guerrero are Native American (61.36 ± 2.69% by ML; 54.17% of Native American haplotypes) and European (35.01 ± 4.59% by ML; 32.29% of European haplotypes), and a relatively low African genetic component (3.63 ± 2.38% by ML; 5.90% of African haplotypes)., (Copyright © 2019 American Society for Histocompatibility and Immunogenetics. Published by Elsevier Inc. All rights reserved.)
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- 2020
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35. Genetic diversity of HLA system in two populations from Michoacán, Mexico: Morelia and rural Michoacán.
- Author
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Ballesteros-Romero M, Barquera R, Rodríguez-López ME, Hernández-Zaragoza DI, Goné-Vázquez I, Clayton S, Arrieta-Bolaños E, Escobedo-Ruíz A, Pantoja-Torres JA, García-Arias VE, Arellano-Prado FP, Bravo-Acevedo A, Sánchez-Fernández MGJ, Sandoval-Sandoval MJ, Gómez-Navarro B, Zúñiga J, Yunis EJ, Bekker-Méndez C, Granados J, and Acuña-Alonzo V
- Subjects
- Alleles, Gene Frequency, Geography, Haplotypes, Humans, Linkage Disequilibrium, Mexico, Rural Population, Ethnicity genetics, Genetic Variation, Genetics, Population, HLA Antigens genetics
- Abstract
We studied HLA class I (HLA-A, -B) and class II (HLA-DRB1, -DQB1) alleles by PCR-SSP based typing in 498 Mexicans from the state of Michoacán living in the city of Morelia (N = 150) and rural communities (N = 348), to obtain information regarding allelic and haplotypic frequencies. We find that the ten most frequent haplotypes found in the state of Michoacán include 12 Native American and two European haplotypes. Admixture estimates revealed that the main genetic components in the state of Michoacán are Native American (48.79 ± 1.44%) and European (43.10 ± 0.86%), while African genetic component is less apparent (8.11 ± 0.85%). Our findings add to the growing knowledge on the population genetics of Western Mexico and provide new HLA data on populations from Michoacán., (Copyright © 2019 American Society for Histocompatibility and Immunogenetics. Published by Elsevier Inc. All rights reserved.)
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- 2020
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36. Genetic diversity of HLA system in two populations from San Luis Potosí, Mexico: San Luis Potosí City and rural San Luis Potosí.
- Author
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Hernández-Zaragoza DI, Rodríguez-Munguía TJ, Barquera R, Adalid-Sáinz C, Arrieta-Bolaños E, Clayton S, Pacheco-Ubaldo H, González-Medina L, Lona-Sánchez A, Bravo-Acevedo A, Aquino-Rubio G, González-Martínez MDR, Delgado-Aguirre H, Escareño-Montiel N, Jaramillo-Rodríguez Y, Salgado-Adame A, Juárez-de la Cruz F, Zúñiga J, Yunis EJ, Bekker-Méndez C, and Granados J
- Subjects
- Alleles, Gene Frequency, Geography, Haplotypes, Humans, Linkage Disequilibrium, Mexico, Rural Population, Ethnicity genetics, Genetic Variation, Genetics, Population, HLA Antigens genetics
- Abstract
We studied HLA class I (HLA-A, -B) and class II (HLA-DRB1, -DQB1) alleles by PCR-SSP based typing in 117 Mexicans from the state of San Luis Potosí living in the city of San Luis Potosí (N = 30) and rural communities (N = 87), to obtain information regarding allelic and haplotypic frequencies. We find that the most frequent haplotypes in the state include 13 Native American, six European, two African and two Asian haplotypes. Admixture estimates revealed that the main genetic components are Native American (52.72 ± 0.66% by ML; 48.29% of Native American haplotypes) and European (34.62 ± 4.28% by ML; 32.48% of European haplotypes), and a relatively high African genetic component (12.66 ± 4.61% by ML; 10.26% of African haplotypes)., (Copyright © 2019 American Society for Histocompatibility and Immunogenetics. Published by Elsevier Inc. All rights reserved.)
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- 2020
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37. Genetic diversity of HLA system in two populations from Campeche, Mexico: Campeche city and rural Campeche.
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Barquera R, Lara-Riegos J, Ponnandai-Shanmugavel KS, Immel A, Arrieta-Bolaños E, Clayton S, Solís-Martínez R, Bravo-Acevedo A, Vázquez-Castillo TV, Hernández-Zaragoza DI, Vega-Martínez MDR, Salgado-Galicia N, Medina-Escobedo CE, Zúñiga J, Yunis EJ, Bekker-Méndez C, and Granados J
- Subjects
- Alleles, Cities, Gene Frequency, Genotype, Geography, Haplotypes, Humans, Linkage Disequilibrium, Mexico, Rural Population, Ethnicity genetics, Genetic Variation, Genetics, Population, HLA Antigens genetics
- Abstract
We studied HLA class I (HLA-A, -B) and class II (HLA-DRB1, -DQB1) alleles by PCR-SSP based typing in 81 Mexicans from the state of Campeche living in the city of Campeche (N = 34) and rural communities (N = 47), to obtain information regarding allelic and haplotypic frequencies. We find that the most frequent haplotypes in the state of Campeche include ten Native American, three European, one African and one Asian haplotype. Admixture estimates revealed that the main genetic components in the state of Campeche are Native American (65.56 ± 0.96% by ML; 51.24% of Native American haplotypes), European (34.44 ± 10.94% by ML; 30.25% of European haplotypes), and a virtually absent African genetic component (0.00 ± 10.31% by ML; 9.26% of African haplotypes)., (Copyright © 2019 American Society for Histocompatibility and Immunogenetics. Published by Elsevier Inc. All rights reserved.)
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- 2020
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38. Genetic diversity of HLA system in two populations from Tlaxcala, Mexico: Tlaxcala city and rural Tlaxcala.
- Author
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Pavón-Vargas MLÁ, Crawford MH, Barquera R, López-Gil C, Arrieta-Bolaños E, Clayton S, Hernández-Zaragoza DI, Bravo-Acevedo A, Ramos-de la Cruz FDR, Méndez-Mani P, Zúñiga J, Yunis EJ, Bekker-Méndez C, and Granados J
- Subjects
- Alleles, Cities, Gene Frequency, Geography, Haplotypes, Humans, Linkage Disequilibrium, Mexico, Rural Population, Ethnicity genetics, Genetic Variation, Genetics, Population, HLA Antigens genetics
- Abstract
We studied HLA class I (HLA-A, -B) and class II (HLA-DRB1, -DQB1) alleles by PCR-SSP based typing in 1011 Mexicans from the state of Tlaxcala residing in the city of Tlaxcala (N = 181) and rural communities (N = 830), to obtain information regarding allelic and haplotypic frequencies. We find that the ten most frequent haplotypes in Tlaxcala are all of Native American origin. Admixture estimates revealed that the main genetic components are Native American (75.13 ± 1.56% by ML; 69.24% based on of Native American haplotypes) and European (16.10 ± 4.98% by ML; 19.74% of European haplotypes), with a less prominent African genetic component (8.78 ± 4.09% by ML; 4.35% of African haplotypes)., (Copyright © 2019 American Society for Histocompatibility and Immunogenetics. Published by Elsevier Inc. All rights reserved.)
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- 2020
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39. Genetic diversity of HLA system in two populations from Yucatán, Mexico: Mérida and rural Yucatán.
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Lara-Riegos J, Barquera R, Castillo-Chávez OD, Medina-Escobedo CE, Hernández-Zaragoza DI, Arrieta-Bolaños E, Clayton S, Ponnandai-Shanmugavel KS, Bravo-Acevedo A, Zúñiga J, Yunis EJ, Bekker-Méndez C, and Granados J
- Subjects
- Alleles, Cities, Gene Frequency, Geography, Haplotypes, Humans, Linkage Disequilibrium, Mexico, Rural Population, Ethnicity genetics, Genetic Variation, Genetics, Population, HLA Antigens genetics
- Abstract
We studied HLA class I (HLA-A, -B) and class II (HLA-DRB1, -DQB1) alleles by PCR-SSP based typing in 324 Mexicans from the state of Yucatán living in the city of Mérida (N = 192) and rural communities (N = 132), to obtain information regarding allelic and haplotypic frequencies. We found that the most frequent haplotypes in the state of Yucatán include 16 Native American and one European haplotype. Admixture estimates revealed that the main genetic components in Yucatán are Native American (81.54 ± 4.99% by ML; 62.92% of Native American haplotypes) and European (11.50 ± 15.43% by ML; 23.26% of European haplotypes), and a less prominent African genetic component (6.96 ± 10.47% by ML; 5.93% of African haplotypes)., (Copyright © 2019 American Society for Histocompatibility and Immunogenetics. Published by Elsevier Inc. All rights reserved.)
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- 2020
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40. Genetic diversity of HLA system in two populations from Nayarit, Mexico: Tepic and rural Nayarit.
- Author
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Goné-Vázquez I, Barquera R, Arellano-Prado FP, Hernández-Zaragoza DI, Escobedo-Ruíz A, Clayton S, Arrieta-Bolaños E, García-Arias VE, Rodríguez-López ME, Bravo-Acevedo A, Sánchez-Fernández MGJ, Sandoval-Sandoval MJ, Gómez-Navarro B, Zúñiga J, Yunis EJ, Bekker-Méndez C, and Granados J
- Subjects
- Alleles, Gene Frequency, Geography, Haplotypes, Humans, Linkage Disequilibrium, Mexico, Rural Population, Ethnicity genetics, Genetic Variation, Genetics, Population, HLA Antigens genetics
- Abstract
We studied HLA class I (HLA-A, -B) and class II (HLA-DRB1, -DQB1) alleles by PCR-SSP based typing in 161 Mexicans from the state of Nayarit living in Tepic (N = 97) and rural communities (N = 64), to obtain information regarding allelic and haplotypic frequencies. We find that the ten most frequent haplotypes found in the state of Nayarit include eight Native American and two European haplotypes. Admixture estimates revealed that the main genetic components in the state of Nayarit are Native American (50.79 ± 5.03% by ML; 42.24% of Native American haplotypes) and European (37.04 ± 6.21% by ML; 35.72% of European haplotypes), while African genetic component is less apparent but relatively high (12.17 ± 2.50% by ML; 13.36% of African haplotypes)., (Copyright © 2019 American Society for Histocompatibility and Immunogenetics. Published by Elsevier Inc. All rights reserved.)
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- 2020
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41. Genetic diversity of HLA system in two populations from Durango, Mexico: Durango city and rural Durango.
- Author
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González-Medina L, Barquera R, Delgado-Aguirre H, Clayton S, Adalid-Sáinz C, Arrieta-Bolaños E, Pacheco-Ubaldo H, Hernández-Zaragoza DI, Escareño-Montiel N, Morán-Martínez J, Bravo-Acevedo A, Lona-Sánchez A, González-Martínez MDR, Jaramillo-Rodríguez Y, Salgado-Adame A, la Cruz FJ, Zúñiga J, Yunis EJ, Bekker-Méndez C, and Granados J
- Subjects
- Alleles, Gene Frequency, Genotype, Geography, Haplotypes, Humans, Linkage Disequilibrium, Mexico, Polymerase Chain Reaction, Rural Population, Ethnicity genetics, Genetic Variation, Genetics, Population, HLA Antigens genetics
- Abstract
We studied HLA class I (HLA-A, -B) and class II (HLA-DRB1, -DQB1) alleles by PCR-SSP based typing in 479 Mexicans from the state of Durango living in Durango city (N = 153) and rural communities (N = 326), to obtain information regarding allelic and haplotypic frequencies. We find that the ten most frequent haplotypes found in the state of Durango include eight Native American and two European haplotypes. Admixture estimates revealed that the main genetic components in Durango are European (54.34 ± 1.68%) and Native American (45.66 ± 2.24%), while African genetic component was virtually absent (0.00 ± 2.03%). However, African haplotypes could be estimated at a proportion of 9.13%., (Copyright © 2019 American Society for Histocompatibility and Immunogenetics. Published by Elsevier Inc. All rights reserved.)
- Published
- 2020
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42. Genetic diversity of HLA system in six populations from Jalisco, Mexico: Guadalajara city, Tlajomulco, Tlaquepaque, Tonalá, Zapopan and rural Jalisco.
- Author
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Bravo-Acevedo A, Escobedo-Ruíz A, Barquera R, Clayton S, García-Arias VE, Arrieta-Bolaños E, Goné-Vázquez I, Hernández-Zaragoza DI, Arellano-Prado FP, Rodríguez-López ME, Sánchez-Fernández MGJ, Sandoval-Sandoval MJ, Gómez-Navarro B, Zúñiga J, Yunis EJ, Bekker-Méndez C, and Granados J
- Subjects
- Alleles, Gene Frequency, Geography, Haplotypes, Humans, Linkage Disequilibrium, Mexico, Rural Population, Ethnicity genetics, Genetic Variation, Genetics, Population, HLA Antigens genetics
- Abstract
We studied HLA class I (HLA-A, -B) and class II (HLA-DRB1, -DQB1) alleles by PCR-SSP based typing in 2046 Mexicans from the state of Jalisco living in the city of Guadalajara (N = 1189), Tlajomulco (N = 30), Tlaquepaque (N = 39), Tonalá (N = 35), Zapopan (N = 168) and rural communities (N = 585), to obtain information regarding allelic and haplotypic frequencies. We find that the most frequent haplotypes found in the state of Jalisco include nine Native American most probable ancestry and three European haplotypes. Admixture estimates revealed that the main genetic components in the state of Jalisco are European (48.45 ± 1.18% by ML; 41.66% of European haplotypes) and Native American (44.02 ± 1.24% by ML; 39.86% of Native American haplotypes), while African genetic component is less apparent (7.53 ± 0.30% by ML; 9.62% of African haplotypes)., (Copyright © 2019 American Society for Histocompatibility and Immunogenetics. Published by Elsevier Inc. All rights reserved.)
- Published
- 2020
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43. Genetic diversity of HLA system in two populations from Puebla, Mexico: Puebla city and rural Puebla.
- Author
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López Gil C, Barquera R, Pavón-Vargas MLÁ, Ramos-de la Cruz FDR, Méndez-Mani P, Arrieta-Bolaños E, Clayton S, Hernández-Zaragoza DI, Bravo-Acevedo A, Zúñiga J, Yunis EJ, Bekker-Méndez C, and Granados J
- Subjects
- Alleles, Cities, Gene Frequency, Geography, Haplotypes, Humans, Linkage Disequilibrium, Mexico, Rural Population, Ethnicity genetics, Genetic Variation, Genetics, Population, HLA Antigens genetics
- Abstract
We studied HLA class I (HLA-A, -B) and class II (HLA-DRB1, -DQB1) alleles by PCR-SSP based typing in 2827 Mexicans from the state of Puebla living in the city of Puebla (N = 1994) and rural communities (N = 833), to obtain information regarding allelic and haplotypic frequencies. We found that the 16 most frequent haplotypes in Puebla are all of them Native American. Admixture estimates revealed that the main genetic components in the state of Puebla are Native American (72.21 ± 1.25% by ML; 63.30% of Native American haplotypes) and European (21.05 ± 1.92% by ML; 23.86% of European haplotypes), and a less prominent African genetic component (6.74 ± 2.20% by ML; 6.20% of African haplotypes)., (Copyright © 2019 American Society for Histocompatibility and Immunogenetics. Published by Elsevier Inc. All rights reserved.)
- Published
- 2020
- Full Text
- View/download PDF
44. Genetic diversity of HLA system in two populations from Hidalgo, Mexico: Pachuca and rural Hidalgo.
- Author
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Barquera R, Martínez-Álvarez JC, Trejo-Ordoz AV, Pavón-Vargas MLÁ, Vega-Martínez MDR, Arrieta-Bolaños E, Clayton S, Ortega-Yáñez A, Juárez-Cortés ED, Juárez-Nicolás F, López-Gil C, Immel A, Arrazola-García MA, Juárez-Barreto V, Benítez-Arvizu G, Arriaga-Perea AJ, Martínez-Bezies V, Macías-Medrano RM, Ramos-de la Cruz FDR, Hernández-Zaragoza DI, Bravo-Acevedo A, Méndez-Mani P, Escutia-González AB, Montiel-Hernández GD, García-Álvarez R, Salgado-Galicia N, Novelo-Garza B, Zúñiga J, Yunis EJ, Bekker-Méndez C, and Granados J
- Subjects
- Alleles, Gene Frequency, Genotype, Geography, Humans, Linkage Disequilibrium, Mexico, Rural Population, Ethnicity genetics, Genetic Variation, Genetics, Population, HLA Antigens genetics
- Abstract
We studied HLA class I (HLA-A, -B) and class II (HLA-DRB1, -DQB1) alleles by PCR-SSP based typing in 122 Mexicans from the state of Hidalgo living in the city of Pachuca (N = 41) and rural communities (N = 81), to obtain information regarding allelic and haplotypic frequencies. We find that the most frequent haplotypes in Hidalgo include eight Native American and one European haplotypes. Admixture estimates revealed that the main genetic components in Hidalgo are Native American (58.93 ± 2.16% by ML; 54.51% of Native American haplotypes) and European (32.49 ± 2.88% by ML; 28.69% of European haplotypes), and a relatively high African genetic component (8.58 ± 0.93% by ML; 6.97% of African haplotypes)., (Copyright © 2019 American Society for Histocompatibility and Immunogenetics. Published by Elsevier Inc. All rights reserved.)
- Published
- 2020
- Full Text
- View/download PDF
45. Genetic diversity of HLA system in seven populations from Veracruz, Mexico: Veracruz city, Coatzacoalcos, Córdoba, Orizaba, Poza Rica, Xalapa and rural Veracruz.
- Author
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Barquera R, López-Gil C, Acuña-Alonzo V, Vega-Martínez MDR, Rodríguez-Munguía TJ, Martínez-Álvarez JC, Arrieta-Bolaños E, Clayton S, Ramos-de la Cruz FDR, Hernández-Zaragoza DI, Bravo-Acevedo A, Benítez-Arvizu G, Arrazola-García MA, Aquino-Rubio G, Juárez-Barreto V, Méndez-Mani P, Vázquez-Castillo TV, Salgado-Galicia N, Solís-Martínez R, Pavón-Vargas MLÁ, Zúñiga J, Yunis EJ, Bekker-Méndez C, and Granados J
- Subjects
- Alleles, Gene Frequency, Genotype, Geography, Haplotypes, Humans, Linkage Disequilibrium, Mexico, Rural Population, Ethnicity genetics, Genetic Variation, Genetics, Population, HLA Antigens genetics
- Abstract
We studied HLA class I (HLA-A, -B) and class II (HLA-DRB1, -DQB1) alleles by PCR-SSP based typing in 1113 Mexicans from the state of Veracruz living in the cities of Coatzacoalcos (N = 55), Orizaba (N = 60), Córdoba (N = 56), Poza Rica (N = 45), Veracruz (N = 171), Xalapa (N = 187) and rural communities (N = 539) to obtain information regarding allelic and haplotypic frequencies. We found that the most frequent haplotypes include 12 Native American haplotypes. Admixture estimates revealed that the main genetic components are Native American (64.93 ± 1.27% by ML; 55.10% of Native American haplotypes) and European (26.56 ± 0.89% by ML; 28.38% of European haplotypes), and a relatively high African genetic component (8.52 ± 1.82% by ML; 8.78% of African haplotypes)., (Copyright © 2019 American Society for Histocompatibility and Immunogenetics. Published by Elsevier Inc. All rights reserved.)
- Published
- 2020
- Full Text
- View/download PDF
46. Genetic diversity of HLA system in two populations from Morelos, Mexico: Cuernavaca and rural Morelos.
- Author
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Ortega-Yáñez A, Barquera R, Curiel-Giles L, Martínez-Álvarez JC, Macías-Medrano RM, Arrieta-Bolaños E, Clayton S, Bravo-Acevedo A, Hernández-Zaragoza DI, Immel A, Vega-Martínez MDR, Benítez-Arvizu G, Arrazola-García MA, Arriaga-Perea AJ, Juárez-Cortés ED, Juárez-Barreto V, Salgado-Galicia N, Novelo-Garza B, Zúñiga J, Yunis EJ, Bekker-Méndez C, and Granados J
- Subjects
- Alleles, Gene Frequency, Genotype, Geography, Haplotypes, Humans, Linkage Disequilibrium, Mexico, Rural Population, Ethnicity genetics, Genetic Variation, Genetics, Population, HLA Antigens genetics
- Abstract
We studied HLA class I (HLA-A, -B) and class II (HLA-DRB1, -DQB1) alleles by PCR-SSP based typing in 112 Mexicans from the state of Morelos living in the city of Cuernavaca (N = 82) and rural communities (N = 30), to obtain information regarding allelic and haplotypic frequencies. The most frequent haplotypes in Morelos include seven Native American, one European, one African and one Asian haplotype. Admixture estimates revealed that the main genetic components in Morelos are Native American (60.43 ± 2.22% by ML; 53.57% of Native American haplotypes) and European (39.58 ± 3.70% by ML; 27.68% of European haplotypes), and a virtually absent African genetic component (0.00 ± 4.93% by ML; but 11.16% of African haplotypes)., (Copyright © 2019 American Society for Histocompatibility and Immunogenetics. Published by Elsevier Inc. All rights reserved.)
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- 2020
- Full Text
- View/download PDF
47. Genetic diversity of HLA system in two populations from Oaxaca, Mexico: Oaxaca city and rural Oaxaca.
- Author
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Hernández-Hernández O, Hernández-Zaragoza DI, Barquera R, Warinner C, López-Gil C, Arrieta-Bolaños E, Clayton S, Bravo-Acevedo A, Ramos-de la Cruz FDR, Méndez-Mani P, Pavón-Vargas MLÁ, Zúñiga J, Yunis EJ, Bekker-Méndez C, and Granados J
- Subjects
- Alleles, Cities, Gene Frequency, Geography, Haplotypes, Humans, Linkage Disequilibrium, Mexico, Rural Population, Ethnicity genetics, Genetic Variation, Genetics, Population, HLA Antigens genetics
- Abstract
We studied HLA class I (HLA-A, -B) and class II (HLA-DRB1, -DQB1) alleles by PCR-SSP based typing in 636 Mexicans from the state of Oaxaca living in the city of Oaxaca (N = 151) and rural communities (N = 485), to obtain information regarding allelic and haplotypic frequencies. We found that the 13 most frequent haplotypes in Oaxaca are all of putative Native American origin. Admixture estimates revealed that the main genetic components in the state of Oaxaca are Native American (73.12 ± 2.77% by ML; 61.52% of Native American haplotypes) and European (17.36 ± 2.07% by ML; 20.69% of European haplotypes), and a relatively high African genetic component (9.52 ± 0.88% by ML; 8.94% of African haplotypes)., (Copyright © 2019 American Society for Histocompatibility and Immunogenetics. Published by Elsevier Inc. All rights reserved.)
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- 2020
- Full Text
- View/download PDF
48. The immunogenetic diversity of the HLA system in Mexico correlates with underlying population genetic structure.
- Author
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Barquera R, Hernández-Zaragoza DI, Bravo-Acevedo A, Arrieta-Bolaños E, Clayton S, Acuña-Alonzo V, Martínez-Álvarez JC, López-Gil C, Adalid-Sáinz C, Vega-Martínez MDR, Escobedo-Ruíz A, Juárez-Cortés ED, Immel A, Pacheco-Ubaldo H, González-Medina L, Lona-Sánchez A, Lara-Riegos J, Sánchez-Fernández MGJ, Díaz-López R, Guizar-López GU, Medina-Escobedo CE, Arrazola-García MA, Montiel-Hernández GD, Hernández-Hernández O, Ramos-de la Cruz FDR, Juárez-Nicolás F, Pantoja-Torres JA, Rodríguez-Munguía TJ, Juárez-Barreto V, Delgado-Aguirre H, Escutia-González AB, Goné-Vázquez I, Benítez-Arvizu G, Arellano-Prado FP, García-Arias VE, Rodríguez-López ME, Méndez-Mani P, García-Álvarez R, González-Martínez MDR, Aquino-Rubio G, Escareño-Montiel N, Vázquez-Castillo TV, Uribe-Duarte MG, Ruíz-Corral MJ, Ortega-Yáñez A, Bernal-Felipe N, Gómez-Navarro B, Arriaga-Perea AJ, Martínez-Bezies V, Macías-Medrano RM, Aguilar-Campos JA, Solís-Martínez R, Serrano-Osuna R, Sandoval-Sandoval MJ, Jaramillo-Rodríguez Y, Salgado-Adame A, Juárez-de la Cruz F, Novelo-Garza B, Pavón-Vargas MLÁ, Salgado-Galicia N, Bortolini MC, Gallo C, Bedoya G, Rothhammer F, González-José R, Ruiz-Linares A, Canizales-Quinteros S, Romero-Hidalgo S, Krause J, Zúñiga J, Yunis EJ, Bekker-Méndez C, and Granados J
- Subjects
- DNA genetics, DNA isolation & purification, Gene Frequency, Genome, Human, Haplotypes, Humans, Linkage Disequilibrium, Mexico, Alleles, Genetics, Population methods, HLA Antigens genetics, Major Histocompatibility Complex genetics, Polymorphism, Single Nucleotide
- Abstract
We studied HLA class I (HLA-A, -B) and class II (HLA-DRB1, -DQB1) allele groups and alleles by PCR-SSP based typing in a total of 15,318 mixed ancestry Mexicans from all the states of the country divided into 78 sample sets, providing information regarding allelic and haplotypic frequencies and their linkage disequilibrium, as well as admixture estimates and genetic substructure. We identified the presence of 4268 unique HLA extended haplotypes across Mexico and find that the ten most frequent (HF > 1%) HLA haplotypes with significant linkage disequilibrium (Δ'≥0.1) in Mexico (accounting for 20% of the haplotypic diversity of the country) are of primarily Native American ancestry (A*02~B*39~DRB1*04~DQB1*03:02, A*02~B*35~DRB1*08~DQB1*04, A*68~B*39~DRB1*04~DQB1*03:02, A*02~B*35~DRB1*04~DQB1*03:02, A*24~B*39~DRB1*14~DQB1*03:01, A*24~B*35~DRB1*04~DQB1*03:02, A*24~B*39~DRB1*04~DQB1*03:02, A*02~B*40:02~DRB1*04~DQB1*03:02, A*68~B*35~DRB1*04~DQB1*03:02, A*02~B*15:01~DRB1*04~DQB1*03:02). Admixture estimates obtained by a maximum likelihood method using HLA-A/-B/-DRB1 as genetic estimators revealed that the main genetic components in Mexico as a whole are Native American (ranging from 37.8% in the northern part of the country to 81.5% in the southeastern region) and European (ranging from 11.5% in the southeast to 62.6% in northern Mexico). African admixture ranged from 0.0 to 12.7% not following any specific pattern. We were able to detect three major immunogenetic clusters correlating with genetic diversity and differential admixture within Mexico: North, Central and Southeast, which is in accordance with previous reports using genome-wide data. Our findings provide insights into the population immunogenetic substructure of the whole country and add to the knowledge of mixed ancestry Latin American population genetics, important for disease association studies, detection of demographic signatures on population variation and improved allocation of public health resources., Competing Interests: Declaration of Competing Interest The authors declare that they have no known competing financial interests or personal relationships that could have appeared to influence the work reported in this paper., (Copyright © 2020 The Authors. Published by Elsevier Inc. All rights reserved.)
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- 2020
- Full Text
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49. Genetic diversity of HLA system in three populations from Sonora, Mexico: Ciudad Obregón, Hermosillo and rural Sonora.
- Author
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Uribe-Duarte MG, Aguilar-Campos JA, Barquera R, Bravo-Acevedo A, Clayton S, Arrieta-Bolaños E, Ruíz-Corral MJ, Hernández-Zaragoza DI, Serrano-Osuna R, Yunis EJ, Zúñiga J, Bekker-Méndez C, and Granados J
- Subjects
- Alleles, Gene Frequency, Geography, Medical, Haplotypes, Humans, Mexico, Ethnicity genetics, Genetic Variation, Genetics, Population, HLA Antigens genetics
- Abstract
We studied HLA class I (HLA-A, -B) and class II (HLA-DRB1, -DQB1) alleles by PCR-SSP based typing in 439 Mexicans from the state of Sonora living in Ciudad Obregón (N = 143), Hermosillo (N = 99), and rural communities (N = 197) to obtain information regarding allelic and haplotypic frequencies. We find that the 13 most frequent haplotypes for the state of Sonora include nine Native American, three European and one Asian haplotypes. Admixture estimates revealed that the main genetic components in the state of Sonora are European (51.25 ± 2.90% by ML; 37.70% of European haplotypes) and Native American (43.35 ± 2.57% by ML; 39.64% of Native American haplotypes), while the African genetic component was less apparent (5.39 ± 2.54% by ML; 11.04% of African haplotypes)., (Copyright © 2019 American Society for Histocompatibility and Immunogenetics. Published by Elsevier Inc. All rights reserved.)
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- 2020
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50. Genetic diversity of HLA system in two populations from Quintana Roo, Mexico: Cancún and rural Quintana Roo.
- Author
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Medina-Escobedo CE, Barquera R, Ponnandai-Shanmugavel KS, Lara-Riegos J, Bravo-Acevedo A, Arrieta-Bolaños E, Clayton S, Hernández-Zaragoza DI, Zúñiga J, Yunis EJ, Bekker-Méndez C, and Granados J
- Subjects
- Alleles, Cities, Gene Frequency, Geography, Haplotypes, Humans, Linkage Disequilibrium, Mexico, Rural Population, Ethnicity genetics, Genetic Variation, Genetics, Population, HLA Antigens genetics
- Abstract
We studied HLA class I (HLA-A, -B) and class II (HLA-DRB1, -DQB1) alleles by PCR-SSP based typing in 98 Mexicans from the state of Quintana Roo living in the city of Cancún (N = 48) and rural communities (N = 50), to obtain information regarding allelic and haplotypic frequencies and their linkage disequilibrium. We found that the most frequent haplotypes in Quintana Roo include ten Native American and two European haplotypes. Admixture estimates revealed that the main genetic components in Quintana Roo are Native American (80.85 ± 3.70% by ML; 60.20% of Native American haplotypes) and European (15.19 ± 14.25% by ML; 26.02% of European haplotypes), and a less prominent African genetic component (3.96 ± 10.75% by ML; 6.63% of African haplotypes)., (Copyright © 2019 American Society for Histocompatibility and Immunogenetics. Published by Elsevier Inc. All rights reserved.)
- Published
- 2020
- Full Text
- View/download PDF
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