Skip to main content

Thank you for visiting nature.com. You are using a browser version with limited support for CSS. To obtain the best experience, we recommend you use a more up to date browser (or turn off compatibility mode in Internet Explorer). In the meantime, to ensure continued support, we are displaying the site without styles and JavaScript.

  • Correspondence
  • Published:

MetaPhlAn2 for enhanced metagenomic taxonomic profiling

An Erratum to this article was published on 30 December 2015

This article has been updated

This is a preview of subscription content, access via your institution

Relevant articles

Open Access articles citing this article.

Access options

Rent or buy this article

Prices vary by article type

from$1.95

to$39.95

Prices may be subject to local taxes which are calculated during checkout

Figure 1: MetaPhlAn2 can accurately reconstruct the taxonomic composition of shotgun metagenomes.

Change history

  • 09 December 2015

    In the version of this article initially published, MetaPhlAn was mislabeled as MetaphlAn2 in the key to Figure 1a (blue stars). The error has been corrected in the HTML and PDF versions of the article.

References

  1. Segata, N. et al. Nat. Methods 9, 811–814 (2012).

    Article  CAS  Google Scholar 

  2. The Human Microbiome Project Consortium. Nature 486, 207–214 (2012).

  3. Scher, J.U. et al. Elife 2, e01202 (2013).

    Article  Google Scholar 

  4. Sunagawa, S. et al. Nat. Methods 10, 1196–1199 (2013).

    Article  CAS  Google Scholar 

  5. Wood, D.E. & Salzberg, S. Genome Biol. 15, R46 (2014).

    Article  Google Scholar 

  6. Grice, E.A. et al. Science 324, 1190–1192 (2009).

    Article  CAS  Google Scholar 

Download references

Acknowledgements

We thank S. Farina and M. Cristofolini for skin-sample collection, V. De Sanctis and R. Bertorelli for metagenomic sequencing, B. Ren for help in the generation of the synthetic metagenomes, the Human Microbiome Project Consortium, and the individuals from the Saint Louis, MO, and Houston, TX, areas, whose generous participation made the HMP possible. This work was supported in part by the US National Institutes of Health (grants R01HG005969 and U54DE023798 to C.H.), the US National Science Foundation (grant DBI-1053486 to C.H.), the US Army Research Office (grant W911NF-11-1-0473 to C.H.), Danone Research (grant PLF-5972-GD to G.W.) the European Union Seventh Framework Programme (Marie Curie grant PCIG13-618833 to N.S.), the Italian Ministry of Education, University and Research (grant FIR RBFR13EWWI to N.S.), Fondazione Caritro (grant Rif.Int.2013.0239 to N.S.) and Terme di Comano (grant to N.S.).

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to Nicola Segata.

Ethics declarations

Competing interests

The authors declare no competing financial interests.

Supplementary information

Supplementary Text and Figures

Supplementary Figures 1–22, Supplementary Table 1–13 and Supplementary Notes 1–7 (PDF 5854 kb)

Supplementary Software

Python-based MetaPhlAn2 software package (ZIP 37 kb)

Rights and permissions

Reprints and permissions

About this article

Check for updates. Verify currency and authenticity via CrossMark

Cite this article

Truong, D., Franzosa, E., Tickle, T. et al. MetaPhlAn2 for enhanced metagenomic taxonomic profiling. Nat Methods 12, 902–903 (2015). https://doi.org/10.1038/nmeth.3589

Download citation

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1038/nmeth.3589

This article is cited by

Search

Quick links

Nature Briefing

Sign up for the Nature Briefing newsletter — what matters in science, free to your inbox daily.

Get the most important science stories of the day, free in your inbox. Sign up for Nature Briefing