Evidence map›Paper›PMID 34523051›Full record

ArticleGeroScience2021

Epigenetic clock and DNA methylation analysis of porcine models of aging and obesity.

Kyle M Schachtschneider, Lawrence B Schook, Jennifer J Meudt, Dhanansayan Shanmuganayagam, Joseph A Zoller, Amin Haghani, Caesar Z Li, Joshua Zhang, Andrew Yang, Ken Raj and 1 more

Open access · hybridAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in GeroScience, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers, 2 of them syntheses that pooled it.

0numbers the graph read from it
0cells of the map it votes in
26citing papers in PubMed, 2 pooled it
3.1field-weighted citation impact, top 7% 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

26 citing papers in PubMed, 2 syntheses or guidelines pooled it, 43 citations in OpenAlex.

  1. Pooled it
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  17. Harnessing male germline epigenomics for the genetic improvement in cattle.Journal of animal science and biotechnology · 2023
    Review
  18. Article
  19. Making sense of the ageing methylome.Nature reviews. Genetics · 2022
    Review
  20. 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

11 authors at 4 institutions in 2 countries.

Kyle M SchachtschneiderDepartment of Radiology, University of Illinois At Chicago, Chicago, IL, USA.
Lawrence B SchookDepartment of Radiology, University of Illinois At Chicago, Chicago, IL, USA.
Jennifer J MeudtBiomedical & Genomic Research Group, Department of Animal and Dairy Sciences, University of Wisconsin - Madison, Madison, WI, USA.
Dhanansayan ShanmuganayagamBiomedical & Genomic Research Group, Department of Animal and Dairy Sciences, University of Wisconsin - Madison, Madison, WI, USA.
Joseph A ZollerDepartment of Biostatistics, Fielding School of Public Health, University of California, Los Angeles, Los Angeles, CA, USA.
Amin HaghaniDepartment of Biostatistics, Fielding School of Public Health, University of California, Los Angeles, Los Angeles, CA, USA.
Caesar Z LiDepartment of Biostatistics, Fielding School of Public Health, University of California, Los Angeles, Los Angeles, CA, USA.
Joshua ZhangDepartment of Human Genetics, David Geffen School of Medicine, University of California, Los Angeles, Gonda Building, 695 Charles Young Drive South, Los Angeles, CA, 90095, USA.
Andrew YangDepartment of Biostatistics, Fielding School of Public Health, University of California, Los Angeles, Los Angeles, CA, USA.
Ken RajRadiation Effects Department, Centre for Radiation, Chemical and Environmental Hazards, Public Health England, Chilton, Didcot, UK.
Steve HorvathDepartment of Biostatistics, Fielding School of Public Health, University of California, Los Angeles, Los Angeles, CA, USA. shorvath@mednet.ucla.edu.ORCID http://orcid.org/0000-0002-4110-3589
University of California, Los Angeles · USUniversity of Illinois Urbana-Champaign · USUniversity of Wisconsin–Madison · USPublic Health England · GB

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

DNA-methylation profiles have been used successfully to develop highly accurate biomarkers of age, epigenetic clocks, for many species. Using a custom methylation array, we generated DNA methylation data from n = 238 porcine tissues including blood, bladder, frontal cortex, kidney, liver, and lung, from domestic pigs (Sus scrofa domesticus) and minipigs (Wisconsin Miniature Swine™). Samples used in this study originated from Large White X Landrace crossbred pigs, Large White X Minnesota minipig crossbred pigs, and Wisconsin Miniature Swine™. We present 4 epigenetic clocks for pigs that are distinguished by their compatibility with tissue type (pan-tissue and blood clock) and species (pig and human). Two dual-species human-pig pan-tissue clocks accurately measure chronological age and relative age, respectively. We also characterized CpGs that differ between minipigs and domestic pigs. Strikingly, several genes implicated by our epigenetic studies of minipig status overlap with genes (ADCY3, TFAP2B, SKOR1, and GPR61) implicated by genetic studies of body mass index in humans. In addition, CpGs with different levels of methylation between the two pig breeds were identified proximal to genes involved in blood LDL levels and cholesterol synthesis, of particular interest given the minipig's increased susceptibility to cardiovascular disease compared to domestic pigs. Thus, breed-specific differences of domestic and minipigs may potentially help to identify biological mechanisms underlying weight gain and aging-associated diseases. Our porcine clocks are expected to be useful for elucidating the role of epigenetics in aging and obesity, and the testing of anti-aging interventions.

Indexed as

DNA MethylationEpigenesis, GeneticAgingAnimalsObesitySwineSwine, MiniatureAgingDevelopmentDNA methylationEpigenetic clockMinipigsPigPorcine

Identifiers

PMID34523051
PMCPMC8599541
OpenAlexW3199034274

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.