Application of bioinformatics tools for analysis of whole-genome DNA methylation profiling before and after bariatric surgery

• Grant number: 17/07220-7
• Support Opportunities: Scholarships abroad - Research Internship - Post-doctor
• Effective date (Start): September 20, 2017
• Effective date (End): December 19, 2017
• Field of knowledge: Health Sciences - Nutrition - Nutrition Biochemistry
• Principal Investigator: Carla Barbosa Nonino
• Grantee: Carolina Nicoletti Ferreira Fino
• Supervisor: Ana Belén Crujeiras Martínez
• Host Institution: Faculdade de Medicina de Ribeirão Preto (FMRP). Universidade de São Paulo (USP). Ribeirão Preto , SP, Brazil
• Research place: Universidade de Santiago de Compostela, Santiago (USC), Spain
• Associated to the scholarship: 15/18669-0 - Whole-genome DNA methylation profiling before and after Roux-en-Y gastric bypass, BP.PD

Abstract

The array technology incorporates a whole-genome amplification step after bisulphite conversion, which is followed by fragmentation and hybridization of the sample to methylation-specific DNA oligomers that are linked to individual bead types that's corresponds to a specific DNA CpG site and methylation state. After alignment, further bioinformatics steps are required for extracting biologically meaningful information. The aim of this study is develop skills and increase knowledge in bioinformatics for better interpretation and analysis of array-based DNA methylation data with specific using obese patients submitted to bariatric surgery as a model. For this purpose, we will use DNA from 40 women from a mixed population, aged 18 to 60 years which were randomized into two groups: Group Bariatric Surgery: composed of 20 patients with severe obesity (BMI>40kg/m²) and Control group, consisting of 20 normal weigh women (BMI between 18.5 and 24.9 kg/m²). The patients were submitted to nutritional evaluation, analysis of body composition, food intake analysis, peripheral blood collection for DNA methylation and biochemical analysis. After six months all procedures were performed again in Group Bariatric Surgery. In this current study, the analysis of methylation array will be performed by bioinformatics tools including specific software. (AU)

Scientific publications

(References retrieved automatically from Web of Science and SciELO through information on FAPESP grants and their corresponding numbers as mentioned in the publications by the authors)

NICOLETTI, C. F. .; PINHEL, M. A. S.; NORONHA, N. Y.; DE OLIVEIRA, B. A.; SALGADO JUNIOR, W.; JACOME, A.; DIAZ-LAGARES, A.; CASANUEVA, F.; CRUJEIRAS, A. B.; NONINO, C. B.. Altered pathways in methylome and transcriptome longitudinal analysis of normal weight and bariatric surgery women. SCIENTIFIC REPORTS, v. 10, n. 1, APR 15 2020. (17/07220-7, 16/05638-1, 13/12819-4, 15/18669-0)

NICOLETTI, C. F.; PINHEL, M. A. S.; DIAZ-LAGARES, A.; CASANUEVA, F. F.; JACOME, A.; PINHANELLI, V. C.; DE OLIVEIRA, B. A. P.; CRUJEIRAS, A. B.; NONINO, C. B.. DNA methylation screening after roux-en Y gastric bypass reveals the epigenetic signature stems from genes related to the surgery per se. BMC MEDICAL GENOMICS, v. 12, MAY 27 2019. (17/07220-7, 16/05638-1, 15/18669-0)

NICOLETTI, CAROLINA F.; PINHEL, MARCELA S.; NORONHA, NATALIA Y.; JACOME, AMALIA; CRUJEIRAS, ANA B.; BARBOSA NONINO, CARLA. Association of MFSD3 promoter methylation level and weight regain after gastric bypass: Assessment for 3 y after surgery. NUTRITION, v. 70, FEB 2020. (17/07220-7, 16/05638-1, 15/18669-0)