Evolutionary age of repetitive element subfamilies and sensitivity of DNA methylation to airborne pollutants

Hyang Min Byun, Valeria Motta, Tommaso Panni, Pier A. Bertazzi, Pietro Apostoli, Lifang Hou, Andrea A. Baccarelli

Research output: Contribution to journalArticle

Abstract

Background: Repetitive elements take up >40% of the human genome and can change distribution through transposition, thus generating subfamilies. Repetitive element DNA methylation has associated with several diseases and environmental exposures, including exposure to airborne pollutants. No systematic analysis has yet been conducted to examine the effects of exposures across different repetitive element subfamilies. The purpose of the study is to evaluate sensitivity of DNA methylation in differentially-evolved LINE, Alu, and HERV subfamilies to different types of airborne pollutants.Methods: We sampled a total of 120 male participants from three studies (20 high-, 20 low-exposure in each study) of steel workers exposed to metal-rich particulate matter (measured as PM10) (Study 1); gas-station attendants exposed to air benzene (Study 2); and truck drivers exposed to traffic-derived elemental carbon (Study 3). We measured methylation by bisulfite-PCR-pyrosequencing in 10 differentially-evolved repetitive element subfamilies.Results: High-exposure groups exhibited subfamily-specific methylation differences compared to low-exposure groups: L1PA2 showed lower DNA methylation in steel workers (P=0.04) and gas station attendants (P=0.03); L1Ta showed lower DNA methylation in steel workers (P=0.02); AluYb8 showed higher DNA methylation in truck drivers (P=0.05). Within each study, dose-response analyses showed subfamily-specific correlations of methylation with exposure levels. Interaction models showed that the effects of the exposures on DNA methylation were dependent on the subfamily evolutionary age, with stronger effects on older LINEs from PM10 (p-interaction=0.003) and benzene (p-interaction=0.04), and on younger Alus from PM10 (p-interaction=0.02).Conclusions: The evolutionary age of repetitive element subfamilies determines differential susceptibility of DNA methylation to airborne pollutants.

Original languageEnglish
Article number28
JournalParticle and Fibre Toxicology
Volume10
Issue number1
DOIs
Publication statusPublished - Jul 15 2013

Fingerprint

DNA Methylation
Methylation
Steel
Truck drivers
Motor Vehicles
Benzene
Gases
Endogenous Retroviruses
Particulate Matter
Environmental Exposure
Human Genome
Carbon
Genes
Metals
Air
Polymerase Chain Reaction

Keywords

  • DNA methylation
  • Environment
  • Exposures
  • Repetitive elements
  • Subfamily

ASJC Scopus subject areas

  • Health, Toxicology and Mutagenesis
  • Toxicology

Cite this

Evolutionary age of repetitive element subfamilies and sensitivity of DNA methylation to airborne pollutants. / Byun, Hyang Min; Motta, Valeria; Panni, Tommaso; Bertazzi, Pier A.; Apostoli, Pietro; Hou, Lifang; Baccarelli, Andrea A.

In: Particle and Fibre Toxicology, Vol. 10, No. 1, 28, 15.07.2013.

Research output: Contribution to journalArticle

Byun, Hyang Min ; Motta, Valeria ; Panni, Tommaso ; Bertazzi, Pier A. ; Apostoli, Pietro ; Hou, Lifang ; Baccarelli, Andrea A. / Evolutionary age of repetitive element subfamilies and sensitivity of DNA methylation to airborne pollutants. In: Particle and Fibre Toxicology. 2013 ; Vol. 10, No. 1.
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abstract = "Background: Repetitive elements take up >40{\%} of the human genome and can change distribution through transposition, thus generating subfamilies. Repetitive element DNA methylation has associated with several diseases and environmental exposures, including exposure to airborne pollutants. No systematic analysis has yet been conducted to examine the effects of exposures across different repetitive element subfamilies. The purpose of the study is to evaluate sensitivity of DNA methylation in differentially-evolved LINE, Alu, and HERV subfamilies to different types of airborne pollutants.Methods: We sampled a total of 120 male participants from three studies (20 high-, 20 low-exposure in each study) of steel workers exposed to metal-rich particulate matter (measured as PM10) (Study 1); gas-station attendants exposed to air benzene (Study 2); and truck drivers exposed to traffic-derived elemental carbon (Study 3). We measured methylation by bisulfite-PCR-pyrosequencing in 10 differentially-evolved repetitive element subfamilies.Results: High-exposure groups exhibited subfamily-specific methylation differences compared to low-exposure groups: L1PA2 showed lower DNA methylation in steel workers (P=0.04) and gas station attendants (P=0.03); L1Ta showed lower DNA methylation in steel workers (P=0.02); AluYb8 showed higher DNA methylation in truck drivers (P=0.05). Within each study, dose-response analyses showed subfamily-specific correlations of methylation with exposure levels. Interaction models showed that the effects of the exposures on DNA methylation were dependent on the subfamily evolutionary age, with stronger effects on older LINEs from PM10 (p-interaction=0.003) and benzene (p-interaction=0.04), and on younger Alus from PM10 (p-interaction=0.02).Conclusions: The evolutionary age of repetitive element subfamilies determines differential susceptibility of DNA methylation to airborne pollutants.",
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AU - Byun, Hyang Min

AU - Motta, Valeria

AU - Panni, Tommaso

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AU - Apostoli, Pietro

AU - Hou, Lifang

AU - Baccarelli, Andrea A.

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AB - Background: Repetitive elements take up >40% of the human genome and can change distribution through transposition, thus generating subfamilies. Repetitive element DNA methylation has associated with several diseases and environmental exposures, including exposure to airborne pollutants. No systematic analysis has yet been conducted to examine the effects of exposures across different repetitive element subfamilies. The purpose of the study is to evaluate sensitivity of DNA methylation in differentially-evolved LINE, Alu, and HERV subfamilies to different types of airborne pollutants.Methods: We sampled a total of 120 male participants from three studies (20 high-, 20 low-exposure in each study) of steel workers exposed to metal-rich particulate matter (measured as PM10) (Study 1); gas-station attendants exposed to air benzene (Study 2); and truck drivers exposed to traffic-derived elemental carbon (Study 3). We measured methylation by bisulfite-PCR-pyrosequencing in 10 differentially-evolved repetitive element subfamilies.Results: High-exposure groups exhibited subfamily-specific methylation differences compared to low-exposure groups: L1PA2 showed lower DNA methylation in steel workers (P=0.04) and gas station attendants (P=0.03); L1Ta showed lower DNA methylation in steel workers (P=0.02); AluYb8 showed higher DNA methylation in truck drivers (P=0.05). Within each study, dose-response analyses showed subfamily-specific correlations of methylation with exposure levels. Interaction models showed that the effects of the exposures on DNA methylation were dependent on the subfamily evolutionary age, with stronger effects on older LINEs from PM10 (p-interaction=0.003) and benzene (p-interaction=0.04), and on younger Alus from PM10 (p-interaction=0.02).Conclusions: The evolutionary age of repetitive element subfamilies determines differential susceptibility of DNA methylation to airborne pollutants.

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KW - Repetitive elements

KW - Subfamily

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