Evidence map›Paper›PMID 27838757›Full record

ArticleArchives of toxicology2017

Transcriptomics and methylomics of CD4-positive T cells in arsenic-exposed women.

Karin Engström, Tomasz K Wojdacz, Francesco Marabita, Philip Ewels, Max Käller, Francesco Vezzi, Nicola Prezza, Joel Gruselius, Marie Vahter, Karin Broberg

Open access · hybridAbstract read
In one paragraph

Article in Archives of toxicology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
11citing papers in PubMed, 1 pooled it
3.8field-weighted citation impact, top 8% 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

11 citing papers in PubMed, 1 synthesis or guideline pooled it, 29 citations in OpenAlex.

  1. Pooled it
  2. Trial
  3. Article
  4. Article
  5. Article
  6. Review
  7. Article
  8. Article
  9. Article
  10. Article
  11. Efflux Transporters Regulate Arsenite-Induced Genotoxicity in Double Negative and Double Positive T Cells.Toxicological sciences : an official journal of the Society of Toxicology · 2017
    Article
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

10 authors at 7 institutions in 2 countries.

Karin EngströmDepartment of Laboratory Medicine, Division of Occupational and Environmental Medicine, Lund University, 221 85, Lund, Sweden.
Tomasz K WojdaczUnit of Metals and Health, Institute of Environmental Medicine, Karolinska Institutet, Box 210, 171 77, Stockholm, Sweden. wojdacz@biomed.au.dk.
Francesco MarabitaUnit of Computational Medicine, Center for Molecular Medicine, Karolinska University Hospital, L805, 171 76, Stockholm, Sweden.
Philip EwelsScience for Life Laboratory (SciLifeLab), Department of Biochemistry and Biophysics, Stockholm University, 106 91, Stockholm, Sweden.
Max KällerScience for Life Laboratory, School of Biotechnology, Division of Gene Technology, Royal Institute of Technology, 171 65, Solna, Sweden.
Francesco VezziScience for Life Laboratory (SciLifeLab), Department of Biochemistry and Biophysics, Stockholm University, 106 91, Stockholm, Sweden.
Nicola PrezzaScience for Life Laboratory, School of Biotechnology, Division of Gene Technology, Royal Institute of Technology, 171 65, Solna, Sweden.
Joel GruseliusDepartment of Mathematical and Computer Science, University of Udine, 331 00, Udine, Italy.
Marie VahterDepartment of Laboratory Medicine, Division of Occupational and Environmental Medicine, Lund University, 221 85, Lund, Sweden.
Karin BrobergUnit of Metals and Health, Institute of Environmental Medicine, Karolinska Institutet, Box 210, 171 77, Stockholm, Sweden. karin.broberg@ki.se.
Karolinska Institutet · SELund University · SEScience for Life Laboratory · SEKarolinska University Hospital · SEKTH Royal Institute of Technology · SEStockholm University · SEUniversity of Udine · IT

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Arsenic, a carcinogen with immunotoxic effects, is a common contaminant of drinking water and certain food worldwide. We hypothesized that chronic arsenic exposure alters gene expression, potentially by altering DNA methylation of genes encoding central components of the immune system. We therefore analyzed the transcriptomes (by RNA sequencing) and methylomes (by target-enrichment next-generation sequencing) of primary CD4-positive T cells from matched groups of four women each in the Argentinean Andes, with fivefold differences in urinary arsenic concentrations (median concentrations of urinary arsenic in the lower- and high-arsenic groups: 65 and 276 μg/l, respectively). Arsenic exposure was associated with genome-wide alterations of gene expression; principal component analysis indicated that the exposure explained 53% of the variance in gene expression among the top variable genes and 19% of 28,351 genes were differentially expressed (false discovery rate <0.05) between the exposure groups. Key genes regulating the immune system, such as tumor necrosis factor alpha and interferon gamma, as well as genes related to the NF-kappa-beta complex, were significantly downregulated in the high-arsenic group. Arsenic exposure was associated with genome-wide DNA methylation; the high-arsenic group had 3% points higher genome-wide full methylation (>80% methylation) than the lower-arsenic group. Differentially methylated regions that were hyper-methylated in the high-arsenic group showed enrichment for immune-related gene ontologies that constitute the basic functions of CD4-positive T cells, such as isotype switching and lymphocyte activation and differentiation. In conclusion, chronic arsenic exposure from drinking water was related to changes in the transcriptome and methylome of CD4-positive T cells, both genome wide and in specific genes, supporting the hypothesis that arsenic causes immunotoxicity by interfering with gene expression and regulation.

Indexed as

AdultArgentinaArsenicCD4-Positive T-LymphocytesCpG IslandsDNA MethylationEnvironmental ExposureFemaleGene Expression ProfilingGene Expression RegulationHigh-Throughput Nucleotide SequencingHumansMiddle AgedPromoter Regions, GeneticArsenicArsenicCD4 cellsImmune systemImmunotoxicMethylomicsTranscriptomics

Identifiers

PMID27838757
PMCPMC5399044
OpenAlexW2556950994

What OpenQuestion holds

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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.