Literature DB >> 33542196

Multi-omic and multi-species meta-analyses of nicotine consumption.

Rohan H C Palmer1, Chelsie E Benca-Bachman2, Spencer B Huggett2, Jason A Bubier3, John E McGeary4,5, Nikhil Ramgiri2, Jenani Srijeyanthan2, Jingjing Yang6, Peter M Visscher7, Jian Yang7, Valerie S Knopik8, Elissa J Chesler3.   

Abstract

Cross-species translational approaches to human genomic analyses are lacking. The present study uses an integrative framework to investigate how genes associated with nicotine use in model organisms contribute to the genetic architecture of human tobacco consumption. First, we created a model organism geneset by collecting results from five animal models of nicotine exposure (RNA expression changes in brain) and then tested the relevance of these genes and flanking genetic variation using genetic data from human cigarettes per day (UK BioBank N = 123,844; all European Ancestry). We tested three hypotheses: (1) DNA variation in, or around, the 'model organism geneset' will contribute to the heritability to human tobacco consumption, (2) that the model organism genes will be enriched for genes associated with human tobacco consumption, and (3) that a polygenic score based off our model organism geneset will predict tobacco consumption in the AddHealth sample (N = 1667; all European Ancestry). Our results suggested that: (1) model organism genes accounted for ~5-36% of the observed SNP-heritability in human tobacco consumption (enrichment: 1.60-31.45), (2) model organism genes, but not negative control genes, were enriched for the gene-based associations (MAGMA, H-MAGMA, SMultiXcan) for human cigarettes per day, and (3) polygenic scores based on our model organism geneset predicted cigarettes per day in an independent sample. Altogether, these findings highlight the advantages of using multiple species evidence to isolate genetic factors to better understand the etiological complexity of tobacco and other nicotine consumption.

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Year:  2021        PMID: 33542196      PMCID: PMC7862377          DOI: 10.1038/s41398-021-01231-y

Source DB:  PubMed          Journal:  Transl Psychiatry        ISSN: 2158-3188            Impact factor:   6.222


  32 in total

1.  Nicotine causes age-dependent changes in gene expression in the adolescent female rat brain.

Authors:  Oksana O Polesskaya; Karl J Fryxell; Amita D Merchant; Laura L Locklear; Ko-Fei Ker; Craig G McDonald; Amy K Eppolito; Laura N Smith; Tracey L Wheeler; Robert F Smith
Journal:  Neurotoxicol Teratol       Date:  2006-11-23       Impact factor: 3.763

2.  Gene expression changes in a zebrafish model of drug dependency suggest conservation of neuro-adaptation pathways.

Authors:  Layla J M Kily; Yuka C M Cowe; Osman Hussain; Salma Patel; Suzanne McElwaine; Finbarr E Cotter; Caroline H Brennan
Journal:  J Exp Biol       Date:  2008-05       Impact factor: 3.312

3.  Nicotinic effects on the firing pattern of midbrain dopamine neurons.

Authors:  J Grenhoff; G Aston-Jones; T H Svensson
Journal:  Acta Physiol Scand       Date:  1986-11

4.  Harnessing Genetic Complexity to Enhance Translatability of Alzheimer's Disease Mouse Models: A Path toward Precision Medicine.

Authors:  Sarah M Neuner; Sarah E Heuer; Matthew J Huentelman; Kristen M S O'Connell; Catherine C Kaczorowski
Journal:  Neuron       Date:  2018-12-27       Impact factor: 17.173

5.  UK biobank: an open access resource for identifying the causes of a wide range of complex diseases of middle and old age.

Authors:  Cathie Sudlow; John Gallacher; Naomi Allen; Valerie Beral; Paul Burton; John Danesh; Paul Downey; Paul Elliott; Jane Green; Martin Landray; Bette Liu; Paul Matthews; Giok Ong; Jill Pell; Alan Silman; Alan Young; Tim Sprosen; Tim Peakman; Rory Collins
Journal:  PLoS Med       Date:  2015-03-31       Impact factor: 11.069

6.  Second-generation PLINK: rising to the challenge of larger and richer datasets.

Authors:  Christopher C Chang; Carson C Chow; Laurent Cam Tellier; Shashaank Vattikuti; Shaun M Purcell; James J Lee
Journal:  Gigascience       Date:  2015-02-25       Impact factor: 6.524

7.  GeneWeaver: data driven alignment of cross-species genomics in biology and disease.

Authors:  Erich Baker; Jason A Bubier; Timothy Reynolds; Michael A Langston; Elissa J Chesler
Journal:  Nucleic Acids Res       Date:  2015-12-09       Impact factor: 16.971

8.  Genome-wide association study of alcohol consumption and use disorder in 274,424 individuals from multiple populations.

Authors:  Henry R Kranzler; Hang Zhou; Rachel L Kember; Rachel Vickers Smith; Amy C Justice; Scott Damrauer; Philip S Tsao; Derek Klarin; Aris Baras; Jeffrey Reid; John Overton; Daniel J Rader; Zhongshan Cheng; Janet P Tate; William C Becker; John Concato; Ke Xu; Renato Polimanti; Hongyu Zhao; Joel Gelernter
Journal:  Nat Commun       Date:  2019-04-02       Impact factor: 14.919

9.  Cross-species alcohol dependence-associated gene networks: Co-analysis of mouse brain gene expression and human genome-wide association data.

Authors:  Kristin M Mignogna; Silviu A Bacanu; Brien P Riley; Aaron R Wolen; Michael F Miles
Journal:  PLoS One       Date:  2019-04-24       Impact factor: 3.240

10.  A computational tool (H-MAGMA) for improved prediction of brain-disorder risk genes by incorporating brain chromatin interaction profiles.

Authors:  Nancy Y A Sey; Benxia Hu; Won Mah; Harper Fauni; Jessica Caitlin McAfee; Prashanth Rajarajan; Kristen J Brennand; Schahram Akbarian; Hyejung Won
Journal:  Nat Neurosci       Date:  2020-03-09       Impact factor: 24.884

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  2 in total

1.  Mining the key genes for ventilator-induced lung injury using co-expression network analysis.

Authors:  Zhao Li; Yajun Xiao; Li Xu; Qingxiu Wang
Journal:  Biosci Rep       Date:  2021-03-26       Impact factor: 3.840

2.  Meta-Analysis of Transcriptome-Wide Association Studies across 13 Brain Tissues Identified Novel Clusters of Genes Associated with Nicotine Addiction.

Authors:  Zhenyao Ye; Chen Mo; Hongjie Ke; Qi Yan; Chixiang Chen; Peter Kochunov; L Elliot Hong; Braxton D Mitchell; Shuo Chen; Tianzhou Ma
Journal:  Genes (Basel)       Date:  2021-12-23       Impact factor: 4.141

  2 in total

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