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Nat Biotechnol DOI:10.1038/nbt.1823

Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications.

Publication TypeJournal Article
Year of Publication2011
AuthorsYilmaz, P, Kottmann, R, Field, D, Knight, R, Cole, JR, Amaral-Zettler, L, Gilbert, JA, Karsch-Mizrachi, I, Johnston, A, Cochrane, G, Vaughan, R, Hunter, C, Park, J, Morrison, N, Rocca-Serra, P, Sterk, P, Arumugam, M, Bailey, M, Baumgartner, L, Birren, BW, Blaser, MJ, Bonazzi, V, Booth, T, Bork, P, Bushman, FD, Buttigieg, PLuigi, Chain, PSG, Charlson, E, Costello, EK, Huot-Creasy, H, Dawyndt, P, DeSantis, T, Fierer, N, Fuhrman, JA, Gallery, RE, Gevers, D, Gibbs, RA, San Gil, I, Gonzalez, A, Gordon, JI, Guralnick, R, Hankeln, W, Highlander, S, Hugenholtz, P, Jansson, J, Kau, AL, Kelley, ST, Kennedy, J, Knights, D, Koren, O, Kuczynski, J, Kyrpides, N, Larsen, R, Lauber, CL, Legg, T, Ley, RE, Lozupone, CA, Ludwig, W, Lyons, D, Maguire, E, Methé, BA, Meyer, F, Muegge, B, Nakielny, S, Nelson, KE, Nemergut, D, Neufeld, JD, Newbold, LK, Oliver, AE, Pace, NR, Palanisamy, G, Peplies, J, Petrosino, J, Proctor, L, Pruesse, E, Quast, C, Raes, J, Ratnasingham, S, Ravel, J, Relman, DA, Assunta-Sansone, S, Schloss, PD, Schriml, L, Sinha, R, Smith, MI, Sodergren, E, Spo, A, Stombaugh, J, Tiedje, JM, Ward, DV, Weinstock, GM, Wendel, D, White, O, Whiteley, A, Wilke, A, Wortman, JR, Yatsunenko, T, Glöckner, FOliver
JournalNat Biotechnol
Volume29
Issue5
Pages415-20
Date Published2011 May
ISSN1546-1696
KeywordsBiomarkers, Checklist, Databases, Genetic, Environment, Genes, rRNA, Genetic Variation, Humans, Information Storage and Retrieval, Internet, Metagenomics, Programming Languages, Sequence Analysis, DNA, Software
Abstract

Here we present a standard developed by the Genomic Standards Consortium (GSC) for reporting marker gene sequences--the minimum information about a marker gene sequence (MIMARKS). We also introduce a system for describing the environment from which a biological sample originates. The 'environmental packages' apply to any genome sequence of known origin and can be used in combination with MIMARKS and other GSC checklists. Finally, to establish a unified standard for describing sequence data and to provide a single point of entry for the scientific community to access and learn about GSC checklists, we present the minimum information about any (x) sequence (MIxS). Adoption of MIxS will enhance our ability to analyze natural genetic diversity documented by massive DNA sequencing efforts from myriad ecosystems in our ever-changing biosphere.

URLhttp://dx.doi.org/10.1038/nbt.1823
DOI10.1038/nbt.1823
Pubmed

http://www.ncbi.nlm.nih.gov/pubmed/21552244?dopt=Abstract

Alternate JournalNat. Biotechnol.
PubMed ID21552244
PubMed Central IDPMC3367316
Grant ListUH2 DK083981 / DK / NIDDK NIH HHS / United States
U54 HG003273 / HG / NHGRI NIH HHS / United States
K01 DK090285 / DK / NIDDK NIH HHS / United States
R01 HG005975 / HG / NHGRI NIH HHS / United States
U01 HL098957 / HL / NHLBI NIH HHS / United States
/ / Howard Hughes Medical Institute / United States
R01 HG005975-02 / HG / NHGRI NIH HHS / United States