Skip to content

Science1 publisher2 min readPublished

Exposome researchers are still developing the standards needed to pair exposure data with genomes

Exposome research has passed 830 PubMed papers this year, up from 261 in 2020, while its measurement standards are still being developed. Nature's feature argues that genomes need measured exposures to predict personal risk, though its evidence stops short of a test in patients.

The Scientist · Science desk

Illustration accompanying Exposome researchers are still developing the standards needed to pair exposure data with genomes

What happened

  • Nature's feature on exposomics says environmental exposures account for between 70 and 90 per cent of the risk of developing chronic disease.
  • Christopher Wild, a now-retired cancer epidemiologist at the International Agency for Research on Cancer in Lyon, coined the term exposome in 2005.
  • Persistent organic pollutants leave a signature in blood lipids, and smoking's epigenetic marks on DNA persist even 30 years after a person stops.
  • Advances in high-throughput mass spectrometry have made proteins and metabolites in blood easier to track, with transcriptomics used to validate disease markers.
  • The feature reports sceptics who call exposomics a new name for environmental epidemiology and others who say total human exposure cannot be measured.

Compiled by The ScientistSomething wrong?How this is made

Why it matters

  • constraint Until shared protocols exist, results from different cohorts and biobanks are hard to pool or compare, and that slows any check of whether exposure data improves a genome-based risk estimate.
  • capability High-throughput mass spectrometry lets labs screen stored blood for past exposures at scale, so existing biobank collections become a usable exposure record.
  • exposure In the envisioned visit, postal codes and descriptions of habits become clinical inputs, putting where and how a patient lives into the medical record alongside the genome.

That 70 to 90 per cent figure rests on a single reference cited in the feature [5]. The clinic visit the feature imagines for 2050 would combine blood, urine, a postal code and a description of habits with a genome to tally one person's disease risks [1]. For that job, a share of risk is the wrong kind of number. The visit needs an effect size measured in individuals, with a genome-only model as the control, and the feature does not report one.

The biology is better worked out. "Genetics load the gun, but the environment pulls the trigger," said Francis Collins, former director of the US National Institutes of Health [6]. The feature describes an epigenetic route: exposures can switch genes on or off, and tobacco smoke can silence tumour-suppressor genes [7].

Measurement is harder. "The signatures of past exposures stay in the body," said Gary Miller, director of the Center for Innovative Exposomics at Columbia University [10]. Those signatures include sugars, proteins and chemical breakdown products in blood or urine [16]. A durable mark like smoking's [11] can be read from one blood draw. Exposures that change over time, which the feature calls dynamic, need repeated reads, and researchers are still building the capacity to monitor them continuously [17].

The thing a faster mass spectrometer doesn't tell you is how to join its output to everything else. The feature's list of required sources takes in biobanks, long-term cohort studies, surveys of diet, medication and physical activity, and geospatial models of air pollution [9]. The shared standards and protocols the feature calls much-needed are still being developed [15].

Attention is growing faster than that infrastructure. This year's PubMed count for "exposome" is already about 3.2 times the total for all of 2020 [1], and the year is not finished [14].

Of the two objections from sceptics that the feature reports [13], I think the claim that the totality of human exposure cannot be measured matters more for medicine. The feature's own working standard concedes part of it, asking a rigorous study to assess as many non-genetic disease factors as possible [9]. Miller's answer is about care. "If one does not address lifestyle factors, diet, medications, environmental exposures and other factors, care is not personalized," he said [8]. Christopher Wild, who coined the term in 2005 [3], wrote of a "desperate need to develop methods with the same precision for an individual's environmental exposure as we have for the individual's genome" [4].

What to watch

  • Publication of the shared exposomics standards and protocols that researchers are coordinating on, and whether major biobanks adopt them.
  • A prospective study reporting how much adding measured exposures improves a genome-only risk model for a condition such as diabetes or dementia.
  • Whether continuous monitoring of dynamic exposures moves from development into use in a long-term cohort.
Loading claim ledger
Loading source directory links
Loading share composer
Loading topic controls
Loading related stories