Sparse whole-genome sequencing identifies two loci for major depressive disorder

Nature. 2015 Jul 30;523(7562):588-91. doi: 10.1038/nature14659. Epub 2015 Jul 15.


Major depressive disorder (MDD), one of the most frequently encountered forms of mental illness and a leading cause of disability worldwide, poses a major challenge to genetic analysis. To date, no robustly replicated genetic loci have been identified, despite analysis of more than 9,000 cases. Here, using low-coverage whole-genome sequencing of 5,303 Chinese women with recurrent MDD selected to reduce phenotypic heterogeneity, and 5,337 controls screened to exclude MDD, we identified, and subsequently replicated in an independent sample, two loci contributing to risk of MDD on chromosome 10: one near the SIRT1 gene (P = 2.53 × 10(-10)), the other in an intron of the LHPP gene (P = 6.45 × 10(-12)). Analysis of 4,509 cases with a severe subtype of MDD, melancholia, yielded an increased genetic signal at the SIRT1 locus. We attribute our success to the recruitment of relatively homogeneous cases with severe illness.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Adolescent
  • Adult
  • Asian People / genetics
  • China
  • Chromosomes, Human, Pair 10 / genetics
  • Cohort Studies
  • Depressive Disorder / genetics
  • Depressive Disorder, Major / genetics*
  • Female
  • Genetic Loci / genetics*
  • Genome, Human / genetics
  • Genome-Wide Association Study*
  • Humans
  • Inorganic Pyrophosphatase / genetics
  • Introns / genetics
  • Middle Aged
  • Sequence Analysis, DNA
  • Sirtuin 1 / genetics
  • Young Adult


  • SIRT1 protein, human
  • Sirtuin 1
  • Inorganic Pyrophosphatase
  • phospholysine phosphohistidine inorganic pyrophosphate phosphatase, human