Every fifth published metagenome is not available to science

Research output: Contribution to journalResearch articleContributedpeer-review

Contributors

  • Ester M. Eckert - , National Research Council of Italy (Author)
  • Andrea Di Cesare - , National Research Council of Italy (Author)
  • Diego Fontaneto - , National Research Council of Italy (Author)
  • Thomas U. Berendonk - , Chair of Limnology (Author)
  • Helmut Bürgmann - , Swiss Federal Institute of Aquatic Science and Technology (Author)
  • Eddie Cytryn - , Agricultural Research Organization of Israel (Author)
  • Despo Fatta-Kassinos - , University of Cyprus (Author)
  • Andrea Franzetti - , University of Milan - Bicocca (Author)
  • D. G. Joakim Larsson - , University of Gothenburg (Author)
  • Célia M. Manaia - , Catholic University of Portugal (Author)
  • Amy Pruden - , Virginia Polytechnic Institute and State University (Author)
  • Andrew C. Singer - , Centre for Ecology and Hydrology (Author)
  • Nikolina Udikovic-Kolic - , Ruder Boskovic Institute (Author)
  • Gianluca Corno - , National Research Council of Italy (Author)

Abstract

Have you ever sought to use metagenomic DNA sequences reported in scientific publications? Were you successful? Here, we reveal that metagenomes from no fewer than 20% of the papers found in our literature search, published between 2016 and 2019, were not deposited in a repository or were simply inaccessible. The proportion of inaccessible data within the literature has been increasing year-on-year. Noncompliance with Open Data is best predicted by the scientific discipline of the journal. The number of citations, journal type (e.g., Open Access or subscription journals), and publisher are not good predictors of data accessibility. However, many publications in high-impact factor journals do display a higher likelihood of accessible metagenomic data sets. Twenty-first century science demands compliance with the ethical standard of data sharing of metagenomes and DNA sequence data more broadly. Data accessibility must become one of the routine and mandatory components of manuscript submissions-a requirement that should be applicable across the increasing number of disciplines using metagenomics. Compliance must be ensured and reinforced by funders, publishers, editors, reviewers, and, ultimately, the authors.

Details

Original languageEnglish
Article numbere3000698
JournalPLoS biology
Volume18
Issue number4
Publication statusPublished - Apr 2020
Peer-reviewedYes

External IDs

PubMed 32243442