Evidence map›Paper›PMID 31856895›Full record

ArticleEpigenetics & chromatin2019

Nickel-induced transcriptional changes persist  post exposure through epigenetic reprogramming.

Cynthia C Jose, Zhenjia Wang, Vinay Singh Tanwar, Xiaoru Zhang, Chongzhi Zang, Suresh Cuddapah

Open access · goldAbstract read
In one paragraph

Article in Epigenetics & chromatin, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
16citing papers in PubMed, 1 pooled it
2.3field-weighted citation impact, top 13% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

16 citing papers in PubMed, 1 synthesis or guideline pooled it, 32 citations in OpenAlex.

  1. Pooled it
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  11. Epigenetics in neurodegenerative disorders induced by pesticides.Genes and environment : the official journal of the Japanese Environmental Mutagen Society · 2021
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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

6 authors at 2 institutions in 1 country.

Cynthia C JoseDepartment of Environmental Medicine, New York University School of Medicine, New York, NY, 10010, USA.
Zhenjia WangCenter for Public Health Genomics, Department of Public Health Sciences, University of Virginia School of Medicine, Charlottesville, VA, 22908, USA.
Vinay Singh TanwarDepartment of Environmental Medicine, New York University School of Medicine, New York, NY, 10010, USA.
Xiaoru ZhangDepartment of Environmental Medicine, New York University School of Medicine, New York, NY, 10010, USA.
Chongzhi ZangCenter for Public Health Genomics, Department of Public Health Sciences, University of Virginia School of Medicine, Charlottesville, VA, 22908, USA. zang@virginia.edu.
Suresh CuddapahDepartment of Environmental Medicine, New York University School of Medicine, New York, NY, 10010, USA. suresh.cuddapah@nyulangone.org.ORCID 0000-0002-4556-2029
New York University · USUniversity of Virginia · US

Funding

RESEARCH IN ENVIRONMENTAL HEALTH SCIENCES (CENTER GRANT)P30ES000260 · NIEHS · NEW YORK UNIVERSITY SCHOOL OF MEDICINE · PI COSTA, MAX · 1985 to 2020
$26.1M
Integrative computational models for functional epigenomics and transcriptional regulationR35GM133712 · NIGMS · UNIVERSITY OF VIRGINIA · PI Chongzhi Zang · 2019 to 2026
$3.4M
Epigenetic reprogramming by nickel through chromatin domain disruptionR01ES024727 · NIEHS · NEW YORK UNIVERSITY SCHOOL OF MEDICINE · PI CUDDAPAH, SURESH · 2015 to 2019
$1.9M
Quantitative Modeling for Chromatin Regulation of Gene Expression in CancerK22CA204439 · NCI · UNIVERSITY OF VIRGINIA · PI ZANG, CHONGZHI · 2017 to 2019
$577k
NCI NIH HHS K22 CA204439NCI NIH HHS K22CA204439NIEHS NIH HHS P30 ES000260NIEHS NIH HHS P30ES000260NIEHS NIH HHS R01 ES024727NIEHS NIH HHS R01ES024727NIGMS NIH HHS R35 GM133712NIGMS NIH HHS R35GM133712
6 · The paper itself

Abstract

backgroundNickel is an occupational and environmental toxicant associated with a number of diseases in humans including pulmonary fibrosis, bronchitis and lung and nasal cancers. Our earlier studies showed that the nickel-exposure-induced genome-wide transcriptional changes, which persist even after the termination of exposure may underlie nickel pathogenesis. However, the mechanisms that drive nickel-induced persistent changes to the transcriptome remain elusive.

resultsTo elucidate the mechanisms that underlie nickel-induced long-term transcriptional changes, in this study, we examined the transcriptome and the epigenome of human lung epithelial cells during nickel exposure and after the termination of exposure. We identified two categories of persistently differentially expressed genes: (i) the genes that were differentially expressed during nickel exposure; and (ii) the genes that were differentially expressed only after the termination of exposure. Interestingly, > 85% of the nickel-induced gene expression changes occurred only after the termination of exposure. We also found extensive genome-wide alterations to the activating histone modification, H3K4me3, after the termination of nickel exposure, which coincided with the post-exposure gene expression changes. In addition, we found significant post-exposure alterations to the repressive histone modification, H3K27me3.

conclusionOur results suggest that while modest first wave of transcriptional changes occurred during nickel exposure, extensive transcriptional changes occurred during a second wave of transcription for which removal of nickel ions was essential. By uncovering a new category of transcriptional and epigenetic changes, which occur only after the termination of exposure, this study provides a novel understanding of the long-term deleterious consequences of nickel exposure on human health.

Indexed as

Cell LineDNA MethylationDown-RegulationEpigenesis, GeneticHistonesHumansNickelUp-RegulationHistonesNickelEnvironmental toxicantEpigenomeH3K27me3H3K4me3Nickel exposurePersistent gene differential expressionPost-exposure epigenome changes

Identifiers

PMID31856895
PMCPMC6921556
OpenAlexW2994722535

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.