Analysis of biopsies of gastric cancer, intestinal and diffuse, and non-atrophic gastritis: an overview of loss of heterozygosity in Mexican patients
This study analyzed the loss of heterozygosity (LOH) effect on gastric cancer (GC) tumor samples from 21 Mexican patients, including diffuse (DGC) and intestinal (IGC) subtypes, as well as non-atrophic gastritis (NAG, control). Whole-genome high-density arrays were performed, and LOH regions were id...
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2025-02-01
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| author | Violeta Larios-Serrato Hilda A. Valdez-Salazar Javier Torres Margarita Camorlinga Patricia Piña-Sánchez Fernando Minauro Martha-Eugenia Ruiz-Tachiquín |
| author_facet | Violeta Larios-Serrato Hilda A. Valdez-Salazar Javier Torres Margarita Camorlinga Patricia Piña-Sánchez Fernando Minauro Martha-Eugenia Ruiz-Tachiquín |
| author_sort | Violeta Larios-Serrato |
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| description | This study analyzed the loss of heterozygosity (LOH) effect on gastric cancer (GC) tumor samples from 21 Mexican patients, including diffuse (DGC) and intestinal (IGC) subtypes, as well as non-atrophic gastritis (NAG, control). Whole-genome high-density arrays were performed, and LOH regions were identified among the tissue samples. The differences in affected chromosomes were established among groups, with chromosomes 6 and 8 primarily affected in DGC and chromosomes 3, 16, and 17 in IGC. Functional pathway analysis revealed involvement in cancer-associated processes, such as signal transduction, immune response, and cellular metabolism. Five LOH-genes (IRAK1, IKBKG, PAK3, TKTL1, PRPS1) shared between GC and NAG suggest an early role in carcinogenesis. Specific genes were highlighted for Hallmarks of Cancer NAG-related genes (PTPRJ and NDUFS) were linked to cell proliferation and growth; IGC genes (GNAI2, RHOA, MAPKAPK3, MST1R) to genomic instability, metastasis, and arrest of cell death; and DGC genes to energy metabolism and immune evasion. These findings emphasize the role of LOH in GC pathogenesis and underscore the need for further research to understand LOH-affected genes and their diagnostic or evolution potential in cancer management. Portions of this text were previously published as part of a preprint (https://www.medrxiv.org/content/10.1101/2024.07.29.24311063v1). |
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| spelling | doaj-art-72cc92f259cc44aeab8ec9fc5a2ff5ec2025-08-20T02:04:22ZengPeerJ Inc.PeerJ2167-83592025-02-0113e1892810.7717/peerj.18928Analysis of biopsies of gastric cancer, intestinal and diffuse, and non-atrophic gastritis: an overview of loss of heterozygosity in Mexican patientsVioleta Larios-Serrato0Hilda A. Valdez-Salazar1Javier Torres2Margarita Camorlinga3Patricia Piña-Sánchez4Fernando Minauro5Martha-Eugenia Ruiz-Tachiquín6Laboratorio de Biotecnología y Bioinformática Genómica/Escuela Nacional de Ciencias Biológicas, Instituto Politécnico Nacional, Ciudad de México, MexicoUnidad de Investigación Médica en Enfermedades Infecciosas y Parasitarias/Unidad Médica de Alta Especialidad-Hospital de Pediatría ‘Dr. Silvestre Frenk Freund’/Centro Médico Nacional Siglo XXI, Instituto Mexicano del Seguro Social, Ciudad de México, MexicoUnidad de Investigación Médica en Enfermedades Infecciosas y Parasitarias/Unidad Médica de Alta Especialidad-Hospital de Pediatría ‘Dr. Silvestre Frenk Freund’/Centro Médico Nacional Siglo XXI, Instituto Mexicano del Seguro Social, Ciudad de México, MexicoUnidad de Investigación Médica en Enfermedades Infecciosas y Parasitarias/Unidad Médica de Alta Especialidad-Hospital de Pediatría ‘Dr. Silvestre Frenk Freund’/Centro Médico Nacional Siglo XXI, Instituto Mexicano del Seguro Social, Ciudad de México, MexicoUnidad de Investigación Médica en Enfermedades Oncológicas/Unidad Médica de Alta Especialidad-Hospital de Oncología/Centro Médico Nacional Siglo XXI, Instituto Mexicano del Seguro Social, Ciudad de México, MexicoUnidad de Investigación Médica en Genética Humana/Unidad Médica de Alta Especialidad-Hospital de Pediatría ‘Dr. Silvestre Frenk Freund’/Centro Médico Nacional Siglo XXI, Instituto Mexicano del Seguro Social, Ciudad de México, MexicoUnidad de Investigación Médica en Enfermedades Oncológicas/Unidad Médica de Alta Especialidad-Hospital de Oncología/Centro Médico Nacional Siglo XXI, Instituto Mexicano del Seguro Social, Ciudad de México, MexicoThis study analyzed the loss of heterozygosity (LOH) effect on gastric cancer (GC) tumor samples from 21 Mexican patients, including diffuse (DGC) and intestinal (IGC) subtypes, as well as non-atrophic gastritis (NAG, control). Whole-genome high-density arrays were performed, and LOH regions were identified among the tissue samples. The differences in affected chromosomes were established among groups, with chromosomes 6 and 8 primarily affected in DGC and chromosomes 3, 16, and 17 in IGC. Functional pathway analysis revealed involvement in cancer-associated processes, such as signal transduction, immune response, and cellular metabolism. Five LOH-genes (IRAK1, IKBKG, PAK3, TKTL1, PRPS1) shared between GC and NAG suggest an early role in carcinogenesis. Specific genes were highlighted for Hallmarks of Cancer NAG-related genes (PTPRJ and NDUFS) were linked to cell proliferation and growth; IGC genes (GNAI2, RHOA, MAPKAPK3, MST1R) to genomic instability, metastasis, and arrest of cell death; and DGC genes to energy metabolism and immune evasion. These findings emphasize the role of LOH in GC pathogenesis and underscore the need for further research to understand LOH-affected genes and their diagnostic or evolution potential in cancer management. Portions of this text were previously published as part of a preprint (https://www.medrxiv.org/content/10.1101/2024.07.29.24311063v1).https://peerj.com/articles/18928.pdfLOHDiffuse gastric cancerIntestinal gastric cancerHigh density arraysGene markers |
| spellingShingle | Violeta Larios-Serrato Hilda A. Valdez-Salazar Javier Torres Margarita Camorlinga Patricia Piña-Sánchez Fernando Minauro Martha-Eugenia Ruiz-Tachiquín Analysis of biopsies of gastric cancer, intestinal and diffuse, and non-atrophic gastritis: an overview of loss of heterozygosity in Mexican patients PeerJ LOH Diffuse gastric cancer Intestinal gastric cancer High density arrays Gene markers |
| title | Analysis of biopsies of gastric cancer, intestinal and diffuse, and non-atrophic gastritis: an overview of loss of heterozygosity in Mexican patients |
| title_full | Analysis of biopsies of gastric cancer, intestinal and diffuse, and non-atrophic gastritis: an overview of loss of heterozygosity in Mexican patients |
| title_fullStr | Analysis of biopsies of gastric cancer, intestinal and diffuse, and non-atrophic gastritis: an overview of loss of heterozygosity in Mexican patients |
| title_full_unstemmed | Analysis of biopsies of gastric cancer, intestinal and diffuse, and non-atrophic gastritis: an overview of loss of heterozygosity in Mexican patients |
| title_short | Analysis of biopsies of gastric cancer, intestinal and diffuse, and non-atrophic gastritis: an overview of loss of heterozygosity in Mexican patients |
| title_sort | analysis of biopsies of gastric cancer intestinal and diffuse and non atrophic gastritis an overview of loss of heterozygosity in mexican patients |
| topic | LOH Diffuse gastric cancer Intestinal gastric cancer High density arrays Gene markers |
| url | https://peerj.com/articles/18928.pdf |
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