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


Yilmaz, Pelin, Kottmann, Renzo, Field, Dawn, Knight, Rob, Cole, James R, Amaral-Zettler, Linda, Gilbert, Jack A, Karsch-Mizrachi, Ilene, Johnston, Anjanette, Cochrane, Guy, Vaughan, Robert, Hunter, Christopher, Park, Joonhong, Morrison, Norman, Rocca-Serra, Philippe, Sterk, Peter, Arumugam, Manimozhiyan, Bailey, Mark, Baumgartner, Laura, Birren, Bruce W, Blaser, Martin J, Bonazzi, Vivien, Booth, Tim, Bork, Peer, Bushman, Frederic D, Buttigieg, Pier Luigi ORCID: https://orcid.org/0000-0002-4366-3088, Chain, Patrick S G, Charlson, Emily, Costello, Elizabeth K, Huot-Creasy, Heather, Dawyndt, Peter, DeSantis, Todd, Fierer, Noah, Fuhrman, Jed A, Gallery, Rachel E, Gevers, Dirk, Gibbs, Richard A, Gil, Inigo San, Gonzalez, Antonio, Gordon, Jeffrey I, Guralnick, Robert, Hankeln, Wolfgang, Highlander, Sarah, Hugenholtz, Philip, Jansson, Janet, Kau, Andrew L, Kelley, Scott T, Kennedy, Jerry, Knights, Dan, Koren, Omry, Kuczynski, Justin, Kyrpides, Nikos, Larsen, Robert, Lauber, Christian L, Legg, Teresa, Ley, Ruth E, Lozupone, Catherine A, Ludwig, Wolfgang, Lyons, Donna, Maguire, Eamonn, Methé, Barbara A, Meyer, Folker, Muegge, Brian, Nakielny, Sara, Nelson, Karen E, Nemergut, Diana, Neufeld, Josh D, Newbold, Lindsay K, Oliver, Anna E, Pace, Norman R, Palanisamy, Giriprakash, Peplies, Jörg, Petrosino, Joseph, Proctor, Lita, Pruesse, Elmar, Quast, Christian, Raes, Jeroen, Ratnasingham, Sujeevan, Ravel, Jacques, Relman, David A, Assunta-Sansone, Susanna, Schloss, Patrick D, Schriml, Lynn, Sinha, Rohini, Smith, Michelle I, Sodergren, Erica, Spor, Aymé, Stombaugh, Jesse, Tiedje, James M, Ward, Doyle V, Weinstock, George M, Wendel, Doug, White, Owen, Whiteley, Andrew, Wilke, Andreas, Wortman, Jennifer R, Yatsunenko, Tanya and Glöckner, Frank Oliver ;
Contact
pier.buttigieg [ at ] awi.de

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.



Item Type
Article
Authors
Yilmaz, Pelin, Kottmann, Renzo, Field, Dawn, Knight, Rob, Cole, James R, Amaral-Zettler, Linda, Gilbert, Jack A, Karsch-Mizrachi, Ilene, Johnston, Anjanette, Cochrane, Guy, Vaughan, Robert, Hunter, Christopher, Park, Joonhong, Morrison, Norman, Rocca-Serra, Philippe, Sterk, Peter, Arumugam, Manimozhiyan, Bailey, Mark, Baumgartner, Laura, Birren, Bruce W, Blaser, Martin J, Bonazzi, Vivien, Booth, Tim, Bork, Peer, Bushman, Frederic D, Buttigieg, Pier Luigi ORCID: https://orcid.org/0000-0002-4366-3088, Chain, Patrick S G, Charlson, Emily, Costello, Elizabeth K, Huot-Creasy, Heather, Dawyndt, Peter, DeSantis, Todd, Fierer, Noah, Fuhrman, Jed A, Gallery, Rachel E, Gevers, Dirk, Gibbs, Richard A, Gil, Inigo San, Gonzalez, Antonio, Gordon, Jeffrey I, Guralnick, Robert, Hankeln, Wolfgang, Highlander, Sarah, Hugenholtz, Philip, Jansson, Janet, Kau, Andrew L, Kelley, Scott T, Kennedy, Jerry, Knights, Dan, Koren, Omry, Kuczynski, Justin, Kyrpides, Nikos, Larsen, Robert, Lauber, Christian L, Legg, Teresa, Ley, Ruth E, Lozupone, Catherine A, Ludwig, Wolfgang, Lyons, Donna, Maguire, Eamonn, Methé, Barbara A, Meyer, Folker, Muegge, Brian, Nakielny, Sara, Nelson, Karen E, Nemergut, Diana, Neufeld, Josh D, Newbold, Lindsay K, Oliver, Anna E, Pace, Norman R, Palanisamy, Giriprakash, Peplies, Jörg, Petrosino, Joseph, Proctor, Lita, Pruesse, Elmar, Quast, Christian, Raes, Jeroen, Ratnasingham, Sujeevan, Ravel, Jacques, Relman, David A, Assunta-Sansone, Susanna, Schloss, Patrick D, Schriml, Lynn, Sinha, Rohini, Smith, Michelle I, Sodergren, Erica, Spor, Aymé, Stombaugh, Jesse, Tiedje, James M, Ward, Doyle V, Weinstock, George M, Wendel, Doug, White, Owen, Whiteley, Andrew, Wilke, Andreas, Wortman, Jennifer R, Yatsunenko, Tanya and Glöckner, Frank Oliver ;
Divisions
Primary Division
Programs
Primary Topic
Peer revision
Peer-reviewed
Publication Status
Published
Eprint ID
51127
DOI 10.1038/nbt.1823

Cite as
Yilmaz, P. , Kottmann, R. , Field, D. , Knight, R. , Cole, J. R. , Amaral-Zettler, L. , Gilbert, J. A. , 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, B. W. , Blaser, M. J. , Bonazzi, V. , Booth, T. , Bork, P. , Bushman, F. D. , Buttigieg, P. L. , Chain, P. S. G. , Charlson, E. , Costello, E. K. , Huot-Creasy, H. , Dawyndt, P. , DeSantis, T. , Fierer, N. , Fuhrman, J. A. , Gallery, R. E. , Gevers, D. , Gibbs, R. A. , Gil, I. S. , Gonzalez, A. , Gordon, J. I. , Guralnick, R. , Hankeln, W. , Highlander, S. , Hugenholtz, P. , Jansson, J. , Kau, A. L. , Kelley, S. T. , Kennedy, J. , Knights, D. , Koren, O. , Kuczynski, J. , Kyrpides, N. , Larsen, R. , Lauber, C. L. , Legg, T. , Ley, R. E. , Lozupone, C. A. , Ludwig, W. , Lyons, D. , Maguire, E. , Methé, B. A. , Meyer, F. , Muegge, B. , Nakielny, S. , Nelson, K. E. , Nemergut, D. , Neufeld, J. D. , Newbold, L. K. , Oliver, A. E. , Pace, N. R. , Palanisamy, G. , Peplies, J. , Petrosino, J. , Proctor, L. , Pruesse, E. , Quast, C. , Raes, J. , Ratnasingham, S. , Ravel, J. , Relman, D. A. , Assunta-Sansone, S. , Schloss, P. D. , Schriml, L. , Sinha, R. , Smith, M. I. , Sodergren, E. , Spor, A. , Stombaugh, J. , Tiedje, J. M. , Ward, D. V. , Weinstock, G. M. , Wendel, D. , White, O. , Whiteley, A. , Wilke, A. , Wortman, J. R. , Yatsunenko, T. and Glöckner, F. O. (2011): Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications , Nature Biotechnology, 29 (5), pp. 415-420 . doi: 10.1038/nbt.1823


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