Polygenic prediction and GWAS of depression, PTSD, and suicidal ideation/self-harm in a Peruvian cohort
- 11 January 2020
- journal article
- research article
- Published by Springer Science and Business Media LLC in Neuropsychopharmacology
- Vol. 45 (10), 1595-1602
- https://doi.org/10.1038/s41386-020-0603-5
Abstract
Genome-wide approaches including polygenic risk scores (PRSs) are now widely used in medical research; however, few studies have been conducted in low- and middle-income countries (LMICs), especially in South America. This study was designed to test the transferability of psychiatric PRSs to individuals with different ancestral and cultural backgrounds and to provide genome-wide association study (GWAS) results for psychiatric outcomes in this sample. The PrOMIS cohort (N = 3308) was recruited from prenatal care clinics at the Instituto Nacional Materno Perinatal (INMP) in Lima, Peru. Three major psychiatric outcomes (depression, PTSD, and suicidal ideation and/or self-harm) were scored by interviewers using valid Spanish questionnaires. Illumina Multi-Ethnic Global chip was used for genotyping. Standard procedures for PRSs and GWAS were used along with extra steps to rule out confounding due to ancestry. Depression PRSs significantly predicted depression, PTSD, and suicidal ideation/self-harm and explained up to 0.6% of phenotypic variation (minimum p = 3.9 × 10−6). The associations were robust to sensitivity analyses using more homogeneous subgroups of participants and alternative choices of principal components. Successful polygenic prediction of three psychiatric phenotypes in this Peruvian cohort suggests that genetic influences on depression, PTSD, and suicidal ideation/self-harm are at least partially shared across global populations. These PRS and GWAS results from this large Peruvian cohort advance genetic research (and the potential for improved treatments) for diverse global populations.Keywords
Funding Information
- U.S. Department of Health & Human Services | National Institutes of Health (UL1 TR001085)
This publication has 31 references indexed in Scilit:
- Childhood Abuse and Early Menarche Among Peruvian WomenJournal of Adolescent Health, 2015
- Using the Patient Health Questionnaire (PHQ-9) and the Edinburgh Postnatal Depression Scale (EPDS) to assess suicidal ideation among pregnant women in Lima, PeruArchives of Women's Mental Health, 2014
- Research Review: Polygenic methods and their application to psychiatric traitsJournal of Child Psychology and Psychiatry, 2014
- Improved whole-chromosome phasing for disease and population genetic studiesNature Methods, 2013
- Synthesis of the psychometric properties of the PTSD checklist (PCL) military, civilian, and specific versionsDepression and Anxiety, 2011
- A map of human genome variation from population-scale sequencingNature, 2010
- Common polygenic variation contributes to risk of schizophrenia and bipolar disorderNature, 2009
- Prediction of individual genetic risk to disease from genome-wide association studiesGenome Research, 2007
- The PHQ-9Journal of General Internal Medicine, 2001
- Validation and Utility of a Self-report Version of PRIME-MDThe PHQ Primary Care StudyJAMA, 1999