1
|
Martínez-Hernández F, Gonzalez-Arenas NR, Cervantes JAO, Villalobos G, Olivo-Diaz A, Rendon-Franco E, Maravilla P, Valdovinos MR, Muñoz-Garcia CI. Identification of SARS-CoV-2 in urban rodents from Southern Mexico City at the beginning of the COVID-19 pandemic. Rev Inst Med Trop Sao Paulo 2024; 66:e8. [PMID: 38324874 PMCID: PMC10846537 DOI: 10.1590/s1678-9946202466008] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/05/2023] [Accepted: 12/08/2023] [Indexed: 02/09/2024] Open
Abstract
Currently, there are some concerns about the situation and, in particular, about the future of the COVID-19 pandemic and the new emerging variants of SARS-CoV-2. Rodents are an example of synanthropic animals in urban environments that harbor important zoonoses. Although the molecular identification of SARS-CoV-2 in Rattus norvegicus from New York City had been reported, in other studies, urban wild rodents infected with this virus have not been found. This study aimed to molecularly identify the presence of SARS-CoV-2 in urban wild rodents from Mexico City, trapped along a water channel of a public park as part of a pest control program, at the beginning of the COVID-19 pandemic, during the fall and winter of 2020. Up to 33 Mus musculus and 52 R. norvegicus were captured and euthanized, large intestine samples with feces from the animals were obtained. RNAs were obtained and subjected to qRT-PCR for SARS-CoV-2 identification and threshold cycle (Ct) values were obtained. Four mice (12.1%) and three rats (5.8%) were positive, three rodents exhibited Ct<30. Our results on the frequency of SARS-CoV-2 in urban rats are in line with other previous reports. Thus, similar to other authors, we suggest that surveillance for the detection of SARS-CoV-2 in urban wild rodents, as sentinel animals, should be maintained.
Collapse
Affiliation(s)
| | | | - José Antonio Ocampo Cervantes
- Universidad Autónoma Metropolitana, Centro de Investigaciones Biológicas y Acuícolas de Cuemanco, Ciudad de México, Mexico
| | - Guiehdani Villalobos
- Universidad Autónoma Metropolitana, Departamento de Producción Agrícola y Animal, Ciudad de México, Mexico
| | | | - Emilio Rendon-Franco
- Universidad Autónoma Metropolitana, Departamento de Producción Agrícola y Animal, Ciudad de México, Mexico
| | - Pablo Maravilla
- Hospital General “Dr. Manuel Gea González”, Ciudad de México, Mexico
| | - Mirza Romero Valdovinos
- Hospital General “Dr. Manuel Gea González”, Departamento de Biología Molecular e Histocompatibilidad, Laboratorio de Patógenos Emergentes, Ciudad de México, Mexico
| | - Claudia Irais Muñoz-Garcia
- Universidad Autónoma Metropolitana, Departamento de Producción Agrícola y Animal, Ciudad de México, Mexico
| |
Collapse
|
2
|
Sanchez-Aguillon F, Alarcon-Valdes P, Rojano-Rodriguez M, Ibarra-Arce A, Olivo-Diaz A, Santillan-Benitez JG, Martinez-Hernandez F, Maravilla P, Romero-Valdovinos M. Presence of human adenovirus 36 in visceral fat tissue, viral load, and analysis of its genetic variability. J Med Virol 2023; 95:e29015. [PMID: 37539979 DOI: 10.1002/jmv.29015] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/24/2023] [Revised: 07/17/2023] [Accepted: 07/23/2023] [Indexed: 08/05/2023]
Abstract
It has been proposed that infection by adipogenic viruses constitutes a "low risk" factor for obesity. Here, we report the presence of adenovirus 36 (Ad36) and its viral load copy number in fat tissue of participants with obesity and normal weight; phylogenetic analysis was performed to describe their relationship and genetic variability among viral haplotypes. Adipose tissue obtained from 105 adult patients with obesity (cases) and 26 normal-weight adult participants as controls were analyzed by quantitative polymerase chain reaction (qPCR) amplifying the partial Ad36 E1a gene. The amplicons were examined by melting curves and submitted to sequencing. Then, genetic diversity and phylogenetic inferences were performed. Ad36 was identified at rates of 82% and 46% in the case and control groups, respectively (p = 1.1 × 10-4 , odds ratio = 5.28); viral load copies were also significantly different between both groups, being 25% higher in the case group. Melting curve analysis showed clear amplification among positive samples. Phylogenetic inferences and genetic diversity analyses showed that the Ad36 E1a gene exhibits low genetic variability and differentiation with strong gene flow due to an expanding process. Our results suggest that the phenomenon of infectobesity by Ad36 might not be a low-risk factor, as has been previously argued by other authors.
Collapse
Affiliation(s)
| | | | | | | | | | | | | | - Pablo Maravilla
- Hospital General "Dr. Manuel Gea Gonzalez", Mexico City, Mexico
| | | |
Collapse
|
3
|
Hidalgo-Gonzalez LA, Salgado-Lopez J, Pineda-Rodriguez SA, Martinez A, Romero-Valdovinos M, Martinez-Hernandez F, Rendon-Franco E, Olivo-Diaz A, Maravilla P, Rodriguez-Bataz E. Identification of Blastocystis sp. in school children from a rural Mexican village: subtypes and risk factors analysis. Parasitol Res 2023:10.1007/s00436-023-07872-w. [PMID: 37191687 DOI: 10.1007/s00436-023-07872-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/24/2023] [Accepted: 05/08/2023] [Indexed: 05/17/2023]
Abstract
Blastocystis sp. is a common eukaryotic microorganism that colonizes the intestinal tract of several animals, including humans, although its role as a pathogen is still unclear. In the present study, we report the prevalence and risk factors associated with Blastocystis infection in scholars from a rural community in Mexico. A cross-sectional observational study was carried out on schoolchildren aged 3 to 15 years old; fecal samples were analyzed by culture, Faust technique, and molecular analysis. In addition, a structured questionnaire was applied to identify possible risk factors. Of the 177 samples obtained, Blastocystis sp. was the microorganism that presented the highest frequency (n=78, 44%), and included the following subtypes (STs): ST1 (n=43, 56.5%), ST2 (n=18, 23.6%), and ST3 (n=15, 19.7%); Blastocystis STs were not identified in two cases. No associating factors were found between Blastocystis infection or among STs vs. symptoms. During bivariate analysis, no statistically significant risk factors were found, except for the variable of "eating sweets, snacks, and handmade food on the way home" (p=0.04). Therefore, it is plausible to conclude that schoolchildren become infected with Blastocystis sp. mainly outside their homes, perhaps by eating contaminated handmade food on their way to or from school; however, this variable should be evaluated in detail in future studies.
Collapse
Affiliation(s)
- Leydi Anahi Hidalgo-Gonzalez
- Laboratorio de Investigacion en Parasitologia, Facultad de Ciencias Quimico Biologicas, Universidad Autonoma de Guerrero, El Centenario, 39086, Chilpancingo, Guerrero, Mexico
| | - Jeanille Salgado-Lopez
- Laboratorio de Investigacion en Parasitologia, Facultad de Ciencias Quimico Biologicas, Universidad Autonoma de Guerrero, El Centenario, 39086, Chilpancingo, Guerrero, Mexico
| | - Sandra Alheli Pineda-Rodriguez
- Laboratorio de Investigacion en Parasitologia, Facultad de Ciencias Quimico Biologicas, Universidad Autonoma de Guerrero, El Centenario, 39086, Chilpancingo, Guerrero, Mexico
| | - Arony Martinez
- Hospital General "Dr. Manuel Gea Gonzalez", 14080, Mexico City, Mexico
| | | | | | - Emilio Rendon-Franco
- Departamento de Produccion Agricola y Animal, Universidad Autonoma Metropolitana, Unidad Xochimilco, Mexico City, Mexico
| | | | - Pablo Maravilla
- Hospital General "Dr. Manuel Gea Gonzalez", 14080, Mexico City, Mexico.
| | - Elvia Rodriguez-Bataz
- Laboratorio de Investigacion en Parasitologia, Facultad de Ciencias Quimico Biologicas, Universidad Autonoma de Guerrero, El Centenario, 39086, Chilpancingo, Guerrero, Mexico.
| |
Collapse
|
4
|
Alarcon-Valdes P, Sanchez-Aguillon F, Martinez-Hernandez F, Olivo-Diaz A, Maravilla P, Santillan-Benitez JG, Romero-Valdovinos M. Long-term infection passaging of Human Adenovirus 36 in monkey kidney cells. Rev Inst Med Trop Sao Paulo 2022; 64:e68. [DOI: 10.1590/s1678-9946202264068] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/24/2022] [Accepted: 09/19/2022] [Indexed: 11/16/2022] Open
|
5
|
Sánchez-Barrientos G, Vega-Memije E, García-Corona C, Cuevas-González JC, Zavaleta-Villa B, Ibarra-Arce A, Olivo-Diaz A. Human Leukocyte Antigens -DQA1 and -DQB1 Alleles in Patients With Common Warts. Cureus 2021; 13:e18933. [PMID: 34812317 PMCID: PMC8604088 DOI: 10.7759/cureus.18933] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 10/19/2021] [Indexed: 11/28/2022] Open
Abstract
Introduction The human papillomavirus induces the formation of lesions in different epithelia. Several studies describe an association of class II human leukocyte antigen with genital lesions, implying that they could also be related to the presence of common warts. The goal of this work was to determine the frequency of human leukocyte antigens (HLA)-DQA1 and HLA-DQB1 in Mexicans with common warts. Methods Thirty-two patients with a diagnosis of common warts, without any other systemic disease, and 100 healthy subjects from the same geographic area were recruited. The second exon of the HLA-DQA1 and HLA-DQB1 loci was typed by dot-blot and chemiluminescence. Results Alleles DQA1*03:01:01 (P = 0.021) and DQB1*03:02 (P = 0.036) were associated with the presence of skin warts. DQA1*04:01-DQB1*04:02 (P = 0.009) and DQA1*03:01:01-DQB1*03:02 (P = 0.044) were the most frequent haplotypes in patients. Conclusion In conclusion, the results of our study showed that the alleles DQA1 *03:01:01, DQB1*03:02, DQA1 *04:01, and DQB1*04:02 were associated with susceptibility to common warts, while DQA1*05:01 was significantly diminished in them. Consequently, the haplotypes DQA1*04:01-DQB1*04: 02 and DQA1*03:01:01-DQB1*03:02 were found to be associated with susceptibility, and DQA1*05:01-DQB1*03:01 increased significantly in controls. Therefore, the alleles of the DQA1 and DQB1 genes that are associated with susceptibility could be presenting human papillomavirus (HPV) peptides to T lymphocytes that activate a Th2-type response (anti-inflammatory cytokines), which allows the development of skin warts in this population.
Collapse
Affiliation(s)
| | - Elisa Vega-Memije
- Department of Dermatology, Hospital General "Dr. Manuel Gea González", Mexico City, MEX
| | | | - Juan C Cuevas-González
- Instituto de Ciencias Biomédicas, Universidad Autónoma de Ciudad Juárez, Mexico City, MEX
| | - Beatriz Zavaleta-Villa
- Department of Molecular Biology and Histocompatibility, Hospital General "Dr. Manuel Gea González", Mexico City, MEX
| | - Aurora Ibarra-Arce
- Department of Molecular Biology and Histocompatibility, Hospital General "Dr. Manuel Gea González", Mexico City, MEX
| | - Angelica Olivo-Diaz
- Department of Molecular Biology and Histocompatibility, Hospital General "Dr. Manuel Gea Gonzalez", Mexico City, MEX
| |
Collapse
|
6
|
Ramirez-Hinojosa JP, Rodriguez-Sanchez Y, Romero-Gonzalez AK, Chavez-Gutierrez M, Gonzalez-Arenas NR, Ibarra-Arce A, Arroyo-Escalante S, Zavaleta-Villa B, Leon-Juarez M, Cruz-Holguin VJ, Espinosa de Los Monteros-Perez LE, Olivo-Diaz A, Hernandez-Castro R, Suarez-Roa L, Prado-Calleros H, Sierra-Martinez O, Avila-Ramirez G, Flisser A, Maravilla P, Romero-Valdovinos M. Association between cycle threshold (C t ) values and clinical and laboratory data in inpatients with COVID-19 and asymptomatic health workers. J Med Virol 2021; 93:5969-5976. [PMID: 34196423 PMCID: PMC8427125 DOI: 10.1002/jmv.27170] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2021] [Accepted: 06/28/2021] [Indexed: 12/18/2022]
Abstract
In‐house assays for the diagnosis of severe acute respiratory syndrome coronavirus 2 (SARS‐CoV‐2) by quantitative reverse‐transcription polymerase chain reaction (qRT‐PCR), are feasible alternatives, particularly in developing countries. Cycle threshold (Ct) values obtained by qRT‐PCR were compared with clinical and laboratory data from saliva of inpatients with COVID‐19 and asymptomatic health workers (AHW) were studied. Saliva specimens from 58 inpatients confirmed by qRT‐PCR for SARS‐CoV‐2 using nasopharyngeal specimens, and 105 AHW were studied by qRT‐PCR using three sets of primers for the N (N1, N2, and N3) gene of SARS‐CoV‐2, according to the CDC Diagnostic Panel protocol, showing a positivity of 88% for inpatients and 8% for AHW. Bivariate analysis revealed an association between Ct < 38.0 values for N2 and mechanical ventilation assistance among patients (p = .013). In addition, values of aspartate‐transaminase, lactate dehydrogenase, and ferritin showed significant correlations with Ct values of N1 and N3 genes in inpatients. Therefore, our results show that Ct values correlate with some relevant clinical data for inpatients with COVID‐19.
Collapse
Affiliation(s)
| | | | | | | | | | - Aurora Ibarra-Arce
- División de Parasitología, Hospital General "Dr. Manuel Gea Gonzalez", Mexico City, Mexico
| | - Sara Arroyo-Escalante
- División de Parasitología, Hospital General "Dr. Manuel Gea Gonzalez", Mexico City, Mexico
| | - Beatriz Zavaleta-Villa
- División de Parasitología, Hospital General "Dr. Manuel Gea Gonzalez", Mexico City, Mexico
| | - Moises Leon-Juarez
- Departamento de Inmunobioquimica, Instituto Nacional de Perinatologia, Mexico City, Mexico
| | | | | | - Angelica Olivo-Diaz
- División de Parasitología, Hospital General "Dr. Manuel Gea Gonzalez", Mexico City, Mexico
| | | | - Lourdes Suarez-Roa
- División de Parasitología, Hospital General "Dr. Manuel Gea Gonzalez", Mexico City, Mexico
| | - Hector Prado-Calleros
- División de Parasitología, Hospital General "Dr. Manuel Gea Gonzalez", Mexico City, Mexico
| | | | - Guillermina Avila-Ramirez
- Microbiología y Parasitología, Facultad de Medicina, Universidad Nacional Autonoma de Mexico (UNAM), Mexico City, Mexico
| | - Ana Flisser
- Microbiología y Parasitología, Facultad de Medicina, Universidad Nacional Autonoma de Mexico (UNAM), Mexico City, Mexico
| | - Pablo Maravilla
- División de Parasitología, Hospital General "Dr. Manuel Gea Gonzalez", Mexico City, Mexico
| | | |
Collapse
|
7
|
de León-Bautista MP, Cardenas-Aguayo MDC, Casique-Aguirre D, Almaraz-Salinas M, Parraguirre-Martinez S, Olivo-Diaz A, Thompson-Bonilla MDR, Vargas M. Immunological and Functional Characterization of RhoGDI3 and Its Molecular Targets RhoG and RhoB in Human Pancreatic Cancerous and Normal Cells. PLoS One 2016; 11:e0166370. [PMID: 27832197 PMCID: PMC5104321 DOI: 10.1371/journal.pone.0166370] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/09/2016] [Accepted: 10/27/2016] [Indexed: 11/19/2022] Open
Abstract
RhoGDI proteins have been implicated in several human cancers; changes in their expression levels have shown pro- or anti-tumorigenic effects. Pancreatic Ductal Adenocarcinoma (PDAC) is a complex pathology, with poor prognosis, and most patients die shortly after diagnosis. Efforts have been focused on understanding the role of RhoGDI's in PDAC, specially, RhoGDI1 and RhoGDI2. However, the role of RhoGDI3 has not been studied in relation to cancer or to PDAC. Here, we characterized the expression and functionality of RhoGDI3 and its target GTPases, RhoG and RhoB in pancreatic cell lines from both normal pancreatic tissue and tissue in late stages of PDAC, and compared them to human biopsies. Through immunofluorescences, pulldown assays and subcellular fractionation, we found a reduction in RhoGDI3 expression in the late stages of PDAC, and this reduction correlates with tumor progression and aggressiveness. Despite the reduction in the expression of RhoGDI3 in PDAC, we found that RhoB was underexpressed while RhoG was overexpressed, suggesting that cancerous cells preserve their capacity to activate this pathway, thus these cells may be more eager to response to the stimuli needed to proliferate and become invasive unlike normal cells. Surprisingly, we found nuclear localization of RhoGDI3 in non-cancerous pancreatic cell line and normal pancreatic tissue biopsies, which could open the possibility of novel nuclear functions for this protein, impacting gene expression regulation and cellular homeostasis.
Collapse
Affiliation(s)
- Mercedes Piedad de León-Bautista
- Departamento de Biomedicina Molecular, Centro de Investigación y de Estudios Avanzados del Instituto Politécnico Nacional, Avenida Instituto Politécnico Nacional 2508, col. San Pedro Zacatenco, C.P. 07360, Mexico City, Mexico
| | - Maria del Carmen Cardenas-Aguayo
- Departamento de Fisiología, Facultad de Medicina, Universidad Nacional Autónoma de México, Avenida Universidad 3000, Col. Copilco Universidad, Delegación Coyoacán, C.P. 04510, Mexico City, Mexico
| | - Diana Casique-Aguirre
- Departamento de Biomedicina Molecular, Centro de Investigación y de Estudios Avanzados del Instituto Politécnico Nacional, Avenida Instituto Politécnico Nacional 2508, col. San Pedro Zacatenco, C.P. 07360, Mexico City, Mexico
| | - Manuel Almaraz-Salinas
- Facultad de Bioquímica, Instituto Tecnológico de Milpa Alta, Independencia Sur 36, San Salvador Cuauhtenco, Milpa Alta, 12300, Mexico City, Mexico
| | - Sara Parraguirre-Martinez
- Departamento de Anatomía Patológica, Hospital General Doctor Manuel Gea González, Av. Calzada de Tlalpan 4800, Tlalpan, Sección XVI, 14080, Mexico City, Mexico
| | - Angelica Olivo-Diaz
- Departamento de Biología Molecular e Histocompatibilidad, Hospital Doctor Manuel Gea González, Av. Calzada de Tlalpan 4800, Tlalpan, Sección XVI, 14080, Mexico City, Mexico
| | - María del Rocío Thompson-Bonilla
- Investigación Biomédica y Traslacional, Laboratorio de Medicina Genómica, Hospital 1° de Octubre, ISSSTE, Av. Instituto Politécnico Nacional No. 1669, Colonia: Magdalena de las Salinas, Delegación: Gustavo A Madero, 07760, Mexico City, Mexico
| | - Miguel Vargas
- Departamento de Biomedicina Molecular, Centro de Investigación y de Estudios Avanzados del Instituto Politécnico Nacional, Avenida Instituto Politécnico Nacional 2508, col. San Pedro Zacatenco, C.P. 07360, Mexico City, Mexico
- * E-mail:
| |
Collapse
|
8
|
Rojano-Rodriguez ME, Beristain-Hernandez JL, Zavaleta-Villa B, Maravilla P, Romero-Valdovinos M, Olivo-Diaz A. Leptin receptor gene polymorphisms and morbid obesity in Mexican patients. Hereditas 2016; 153:2. [PMID: 28096764 PMCID: PMC5224584 DOI: 10.1186/s41065-016-0006-0] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/07/2015] [Accepted: 01/24/2016] [Indexed: 12/11/2022] Open
Abstract
BACKGROUND Human obesity is due to a complex interaction among environmental, behavioral, developmental and genetic factors, including the interaction of leptin (LEP) and leptin receptor (LEPR). Several LEPR mutations and polymorphisms have been described in patients with early onset severe obesity and hyperphagic eating behavior; however, some contradictory findings have also been reported. In the present study we explored the association of six LEPR gene polymorphisms in patients with morbid obesity. FINDINGS Twenty eight patients with morbid obesity and 56 non-obese Mexican Mestizo individuals were included. Typing of rs1137100, rs1137101, rs1805134, Ser492Thr, rs1805094 and rs1805096 LEPR polymorphisms was performed by PCR and allele specific hybridization. The LEPR Ser492Thr polymorphism was monomorphic with the presence of only the Ser492Thr-G allele. Allele C and genotype T/C for rs1805134 polymorphism were associated with susceptibility to morbid obesity (p = 0.02 and p = 0.03, respectively). No association was observed with any haplotype. Linkage disequilibrium (LD) showed that five polymorphisms (rs1137100, rs1137101, rs1805134, rs1805094 and rs1805096) were in absolute (D' = 1) but none in perfect (r2 = 1) LD. CONCLUSIONS Our results suggest that rs1805134 polymorphism could be involved in the development of morbid obesity, whilst none of the alleles of the LEPR gene, rs1137100, rs1137101, rs1805094 and rs1805096 were associated as risk factors. However, more studies are necessary to confirm or reject this hypothesis.
Collapse
Affiliation(s)
| | | | - Beatriz Zavaleta-Villa
- Departamento de Biologia Molecular e Histocompatibilidad, Hospital General "Dr. Manuel Gea Gonzalez", SSA, Calzada de Tlalpan 4800, Col. Seccion XVI, 14080 Mexico City, Mexico
| | - Pablo Maravilla
- Departamento de Ecologia de Agentes Patogenos, Hospital General "Dr. Manuel Gea Gonzalez", Mexico City, Mexico
| | - Mirza Romero-Valdovinos
- Departamento de Biologia Molecular e Histocompatibilidad, Hospital General "Dr. Manuel Gea Gonzalez", SSA, Calzada de Tlalpan 4800, Col. Seccion XVI, 14080 Mexico City, Mexico
| | - Angelica Olivo-Diaz
- Departamento de Biologia Molecular e Histocompatibilidad, Hospital General "Dr. Manuel Gea Gonzalez", SSA, Calzada de Tlalpan 4800, Col. Seccion XVI, 14080 Mexico City, Mexico
| |
Collapse
|
9
|
Czogalla B, Schmitteckert S, Houghton LA, Sayuk GS, Camilleri M, Olivo-Diaz A, Spiller R, Wouters MM, Boeckxstaens G, Bermejo JL, Niesler B. A meta-analysis of immunogenetic Case-Control Association Studies in irritable bowel syndrome. Neurogastroenterol Motil 2015; 27:717-27. [PMID: 25824902 DOI: 10.1111/nmo.12548] [Citation(s) in RCA: 32] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 06/02/2014] [Accepted: 02/18/2015] [Indexed: 12/17/2022]
Abstract
BACKGROUND To date, genetic-association studies of single nucleotide polymorphisms (SNP) in selected candidate genes with the symptom phenotype of irritable bowel syndrome (IBS) have typically involved hundreds to 2000 patients. SNPs in immune-related genes, such as cytokine and cytokine receptor encoding genes, have been reported to associate with IBS risk. METHODS We conducted two independent case-control studies on 16 SNPs in IL1R1, IL4, IL6, IL8, IL10, IL23R, TNFA, and TNFSF15, one from the UK (194 patients and 92 healthy volunteers) and one from the USA (137 patients and 96 healthy volunteers). The main aim was to examine the relationship between inherited immunological diversity and IBS risk in a meta-analysis which included 12 additional, earlier studies. The meta-analysis comprised a total of 2894 patients (839 IBS-C, 1073 IBS-D, 502 IBS-M), and 3138 healthy volunteers with self-reported Caucasian ancestry. KEY RESULTS The association of SNP rs4263839 (TNFSF15) was investigated in four studies and confirmed in the meta-analysis: IBS (OR 1.19, 95% CI 1.08-1.31), and IBS-C (OR 1.24, 95% CI 1.08-1.42). No additional SNPs residing in immunogenes associated with IBS symptom phenotypes. CONCLUSIONS & INFERENCES Our meta-analysis could not confirm a major role of most investigated SNPs, but a moderate association between rs4263839 TNFSF15 and IBS, in particular IBS-C. The analysis emphasizes the importance of definition and phenotype homogeneity, adequate study size and representativeness of the patient and control collective.
Collapse
Affiliation(s)
- B Czogalla
- Institute of Human Genetics, Department of Human Molecular Genetics, University of Heidelberg, Heidelberg, Germany
| | | | | | | | | | | | | | | | | | | | | |
Collapse
|
10
|
Villalobos G, Orozco-Mosqueda GE, Lopez-Perez M, Lopez-Escamilla E, Córdoba-Aguilar A, Rangel-Gamboa L, Olivo-Diaz A, Romero-Valdovinos M, Maravilla P, Martinez-Hernandez F. Suitability of internal transcribed spacers (ITS) as markers for the population genetic structure of Blastocystis spp. Parasit Vectors 2014; 7:461. [PMID: 25274498 PMCID: PMC4203911 DOI: 10.1186/s13071-014-0461-2] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/04/2014] [Accepted: 09/26/2014] [Indexed: 02/04/2023] Open
Abstract
Background The purpose of this study was to assess the genetic variation and differentiation of Blastocystis subtypes (STs) recovered from symptomatic children by analysing partial sequences of the small subunit rDNA gene region (SSUrDNA) and internal transcribed spacers (1 and 2) plus the 5.8S region (ITS, ITS1 + 5.8S + ITS2) and comparing with isolates from other countries. Findings Faecal samples from 47 Blastocystis-infected children with gastrointestinal symptoms and negative for pathogenic enterobacteria were analysed. PCR was performed on DNA from all the samples to identify Blastocystis STs, amplifying a fragment of SSUrDNA and the ITS region. The amplicons were purified and sequenced, and consensus sequences were submitted to GenBank; afterwards, SSUrDNA sequences were analysed for genetic diversity according to geographic area. Regarding the Blastocystis STs found, 51% were ST1, 23% ST2, 19% ST3 and 2% ST7. For ITS, a haplotype network tree and Bayesian inference revealed the presence of two novel variants of ST1, clustering some sequences into ST1A and ST1B. The values of nucleotide diversity (π) and haplotype polymorphism (θ) for ST1, ST2 and ST3 ranged from 0 to 1, whereas the ratio of genetic differentiation (FST)/migration index (Nm) showed the highest differentiation between Libya and Thailand-Philippines for ST2 (0.282/0.63). In contrast, a high flow gene was observed between Czech Republic-Denmark-Holland-Spain and USA-Mexico-Colombia for ST1 (0.003/84). Conclusion Our data on genetic differentiation and gene flow might explain the differences for the prevalence of Blastocystis STs. Moreover, the ITS region could be used as a genetic marker to assess genetic variation in this parasite.
Collapse
Affiliation(s)
| | | | | | | | | | | | | | | | - Pablo Maravilla
- Hospital General "Dr, Manuel Gea Gonzalez", Calzada de Tlalpan 4800, Mexico 14080, DF, Mexico.
| | | |
Collapse
|