Unraveling the functional dark matter through global metagenomics

Georgios A. Pavlopoulos; Fotis A. Baltoumas; Sirui Liu; Oguz Selvitopi; Antonio Pedro Camargo; Stephen Nayfach; Ariful Azad; Simon Roux; Lee Call; Natalia N. Ivanova; I. Min Chen; David Paez-Espino; Evangelos Karatzas; Silvia G. Acinas; Nathan Ahlgren; Graeme Attwood; Petr Baldrian; Timothy Berry; Jennifer M. Bhatnagar; Devaki Bhaya; Kay D. Bidle; Jeffrey L. Blanchard; Eric S. Boyd; Jennifer L. Bowen; Jeff Bowman; Susan H. Brawley; Eoin L. Brodie; Andreas Brune; Donald A. Bryant; Alison Buchan; Hinsby Cadillo-Quiroz; Barbara J. Campbell; Ricardo Cavicchioli; Peter F. Chuckran; Maureen Coleman; Sean Crowe; Daniel R. Colman; Cameron R. Currie; Jeff Dangl; Nathalie Delherbe; Vincent J. Denef; Paul Dijkstra; Daniel D. Distel; Emiley Eloe-Fadrosh; Kirsten Fisher; Christopher Francis; Aaron Garoutte; Amelie Gaudin; Lena Gerwick; Filipa Godoy-Vitorino; Peter Guerra; Jiarong Guo; Mussie Y. Habteselassie; Steven J. Hallam; Roland Hatzenpichler; Ute Hentschel; Matthias Hess; Ann M. Hirsch; Laura A. Hug; Jenni Hultman; Dana E. Hunt; Marcel Huntemann; William P. Inskeep; Timothy Y. James; Janet Jansson; Eric R. Johnston; Marina Kalyuzhnaya; Charlene N. Kelly; Robert M. Kelly; Jonathan L. Klassen; Klaus Nüsslein; Joel E. Kostka; Steven Lindow; Erik Lilleskov; Mackenzie Lynes; Rachel Mackelprang; Francis M. Martin; Olivia U. Mason; R. Michael McKay; Katherine McMahon; David A. Mead; Monica Medina; Laura K. Meredith; Thomas Mock; William W. Mohn; Mary Ann Moran; Alison Murray; Josh D. Neufeld; Rebecca Neumann; Jeanette M. Norton; Laila P. Partida-Martinez; Nicole Pietrasiak; Dale Pelletier; T. B.K. Reddy; Brandi Kiel Reese; Nicholas J. Reichart; Rebecca Reiss; Mak A. Saito; Daniel P. Schachtman; Rekha Seshadri; Ashley Shade; David Sherman; Rachel Simister; Holly Simon; James Stegen; Ramunas Stepanauskas; Matthew Sullivan; Dawn Y. Sumner; Hanno Teeling; Kimberlee Thamatrakoln; Kathleen Treseder; Susannah Tringe; Parag Vaishampayan; David L. Valentine; Nicholas B. Waldo; Mark P. Waldrop; David A. Walsh; David M. Ward; Michael Wilkins; Thea Whitman; Jamie Woolet; Tanja Woyke; Ioannis Iliopoulos; Konstantinos Konstantinidis; James M. Tiedje; Jennifer Pett-Ridge; David Baker; Axel Visel; Christos A. Ouzounis; Sergey Ovchinnikov; Aydin Buluç; Nikos C. Kyrpides

doi:10.1038/s41586-023-06583-7

Unraveling the functional dark matter through global metagenomics

Georgios A. Pavlopoulos
, Fotis A. Baltoumas
, Sirui Liu
, Oguz Selvitopi
, Antonio Pedro Camargo
, Stephen Nayfach
, Ariful Azad
, Simon Roux
, Lee Call
, Natalia N. Ivanova
, I. Min Chen
, David Paez-Espino
, Evangelos Karatzas
, Silvia G. Acinas
, Nathan Ahlgren
, Graeme Attwood
, Petr Baldrian
, Timothy Berry
, Jennifer M. Bhatnagar
, Devaki Bhaya

Kay D. Bidle, Jeffrey L. Blanchard, Eric S. Boyd, Jennifer L. Bowen, Jeff Bowman, Susan H. Brawley, Eoin L. Brodie, Andreas Brune, Donald A. Bryant, Alison Buchan, Hinsby Cadillo-Quiroz, Barbara J. Campbell, Ricardo Cavicchioli, Peter F. Chuckran, Maureen Coleman, Sean Crowe, Daniel R. Colman, Cameron R. Currie, Jeff Dangl, Nathalie Delherbe, Vincent J. Denef, Paul Dijkstra, Daniel D. Distel, Emiley Eloe-Fadrosh, Kirsten Fisher, Christopher Francis, Aaron Garoutte, Amelie Gaudin, Lena Gerwick, Filipa Godoy-Vitorino, Peter Guerra, Jiarong Guo, Mussie Y. Habteselassie, Steven J. Hallam, Roland Hatzenpichler, Ute Hentschel, Matthias Hess, Ann M. Hirsch, Laura A. Hug, Jenni Hultman, Dana E. Hunt, Marcel Huntemann, William P. Inskeep, Timothy Y. James, Janet Jansson, Eric R. Johnston, Marina Kalyuzhnaya, Charlene N. Kelly, Robert M. Kelly, Jonathan L. Klassen, Klaus Nüsslein, Joel E. Kostka, Steven Lindow, Erik Lilleskov, Mackenzie Lynes, Rachel Mackelprang, Francis M. Martin, Olivia U. Mason, R. Michael McKay, Katherine McMahon, David A. Mead, Monica Medina, Laura K. Meredith, Thomas Mock, William W. Mohn, Mary Ann Moran, Alison Murray, Josh D. Neufeld, Rebecca Neumann, Jeanette M. Norton, Laila P. Partida-Martinez, Nicole Pietrasiak, Dale Pelletier, T. B.K. Reddy, Brandi Kiel Reese, Nicholas J. Reichart, Rebecca Reiss, Mak A. Saito, Daniel P. Schachtman, Rekha Seshadri, Ashley Shade, David Sherman, Rachel Simister, Holly Simon, James Stegen, Ramunas Stepanauskas, Matthew Sullivan, Dawn Y. Sumner, Hanno Teeling, Kimberlee Thamatrakoln, Kathleen Treseder, Susannah Tringe, Parag Vaishampayan, David L. Valentine, Nicholas B. Waldo, Mark P. Waldrop, David A. Walsh, David M. Ward, Michael Wilkins, Thea Whitman, Jamie Woolet, Tanja Woyke, Ioannis Iliopoulos, Konstantinos Konstantinidis, James M. Tiedje, Jennifer Pett-Ridge, David Baker, Axel Visel, Christos A. Ouzounis, Sergey Ovchinnikov, Aydin Buluç, Nikos C. Kyrpides

Department of Biological Sciences

Biomedical Science Research Center Alexander Fleming
Lawrence Berkeley National Laboratory
School of Medicine
Harvard University
Luddy School of Informatics, Computing, and Engineering
Institute of Marine Sciences-CSIC
Clark University
AgResearch Grasslands
Academy of Sciences of the Czech Republic
University of Wisconsin-Madison
Boston University
Carnegie Institution for Science
Rutgers University
University of Massachusetts Amherst
Montana State University
Northeastern University
Integrative Oceanography Division
University of Maine
Max Planck Institute for Terrestrial Microbiology
Pennsylvania State University
The University of Tennessee, Knoxville
School of Life Sciences
Clemson University
UNSW Sydney
Northern Arizona University
Department of the Geophysical Sciences, The University of Chicago
University of British Columbia
San Diego State University
University of North Carolina at Chapel Hill
The University of Michigan
California State University, Los Angeles
Stanford University
Michigan State University
University of California, Davis
Center for Marine Biotechnology and Biomedicine
University of Puerto Rico School of Medicine
Lynker Corporation
University of Georgia
GEOMAR Helmholtz Centre for Ocean Research Kiel
University of California, Los Angeles
University of Waterloo
University of Helsinki
Duke University Marine Laboratory
Pacific Northwest National Laboratory
Oak Ridge National Laboratory
West Virginia University
North Carolina State University
University of Connecticut
Georgia Institute of Technology
University of California
USDA Forest Service
California State University Northridge
Université de Lorraine
Florida State University
Varigen Biosciences Corporation
University of Arizona
University of East Anglia
University of Georgia
Desert Research Institute Reno
University of Washington
Utah State University
Centro de Investigación y de Estudios Avanzados del IPN (Cinvestav)
New Mexico State University
University of South Alabama
New Mexico Institute of Mining and Technology
Woods Hole Oceanographic Institution
University of Nebraska–Lincoln
Oregon Health & Science University
Animal Microbiome Analytics
Bigelow Laboratory for Ocean Sciences
The Ohio State University
Max-Planck-Institute for Marine Microbiology
University of California, Irvine
NASA Ames Research Center
University of California, Santa Barbara
Geology
Concordia University
Colorado State Univ.
University of Crete Medical School
Lawrence Livermore National Laboratory
Centre for Research & Technology Hellas
Aristotle University of Thessalonica
Department of Electrical Engineering and Computer Sciences

Research output: Contribution to journal › Article › peer-review

Original language	English
Pages (from-to)	594-602
Number of pages	9
Journal	Nature
Volume	622
Issue number	7983
DOIs	https://doi.org/10.1038/s41586-023-06583-7
State	Published - Oct 11 2023

ASJC Scopus Subject Areas

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Pavlopoulos, G. A., Baltoumas, F. A., Liu, S., Selvitopi, O., Camargo, A. P., Nayfach, S., Azad, A., Roux, S., Call, L., Ivanova, N. N., Chen, I. M., Paez-Espino, D., Karatzas, E., Acinas, S. G., Ahlgren, N., Attwood, G., Baldrian, P., Berry, T., Bhatnagar, J. M., ... Kyrpides, N. C. (2023). Unraveling the functional dark matter through global metagenomics. Nature, 622(7983), 594-602. https://doi.org/10.1038/s41586-023-06583-7

Pavlopoulos, GA, Baltoumas, FA, Liu, S, Selvitopi, O, Camargo, AP, Nayfach, S, Azad, A, Roux, S, Call, L, Ivanova, NN, Chen, IM, Paez-Espino, D, Karatzas, E, Acinas, SG, Ahlgren, N, Attwood, G, Baldrian, P, Berry, T, Bhatnagar, JM, Bhaya, D, Bidle, KD, Blanchard, JL, Boyd, ES, Bowen, JL, Bowman, J, Brawley, SH, Brodie, EL, Brune, A, Bryant, DA, Buchan, A, Cadillo-Quiroz, H, Campbell, BJ, Cavicchioli, R, Chuckran, PF, Coleman, M, Crowe, S, Colman, DR, Currie, CR, Dangl, J, Delherbe, N, Denef, VJ, Dijkstra, P, Distel, DD, Eloe-Fadrosh, E, Fisher, K, Francis, C, Garoutte, A, Gaudin, A, Gerwick, L, Godoy-Vitorino, F, Guerra, P, Guo, J, Habteselassie, MY, Hallam, SJ, Hatzenpichler, R, Hentschel, U, Hess, M, Hirsch, AM, Hug, LA, Hultman, J, Hunt, DE, Huntemann, M, Inskeep, WP, James, TY, Jansson, J, Johnston, ER, Kalyuzhnaya, M, Kelly, CN, Kelly, RM, Klassen, JL, Nüsslein, K, Kostka, JE, Lindow, S, Lilleskov, E, Lynes, M, Mackelprang, R, Martin, FM, Mason, OU, McKay, RM, McMahon, K, Mead, DA, Medina, M, Meredith, LK, Mock, T, Mohn, WW, Moran, MA, Murray, A, Neufeld, JD, Neumann, R, Norton, JM, Partida-Martinez, LP, Pietrasiak, N, Pelletier, D, Reddy, TBK, Reese, BK, Reichart, NJ, Reiss, R, Saito, MA, Schachtman, DP, Seshadri, R, Shade, A, Sherman, D, Simister, R, Simon, H, Stegen, J, Stepanauskas, R, Sullivan, M, Sumner, DY, Teeling, H, Thamatrakoln, K, Treseder, K, Tringe, S, Vaishampayan, P, Valentine, DL, Waldo, NB, Waldrop, MP, Walsh, DA, Ward, DM, Wilkins, M, Whitman, T, Woolet, J, Woyke, T, Iliopoulos, I, Konstantinidis, K, Tiedje, JM, Pett-Ridge, J, Baker, D, Visel, A, Ouzounis, CA, Ovchinnikov, S, Buluç, A & Kyrpides, NC 2023, 'Unraveling the functional dark matter through global metagenomics', Nature, vol. 622, no. 7983, pp. 594-602. https://doi.org/10.1038/s41586-023-06583-7

@article{557842f6d362430aa7caeadbed60ee0c,

title = "Unraveling the functional dark matter through global metagenomics",

author = "Pavlopoulos, \{Georgios A.\} and Baltoumas, \{Fotis A.\} and Sirui Liu and Oguz Selvitopi and Camargo, \{Antonio Pedro\} and Stephen Nayfach and Ariful Azad and Simon Roux and Lee Call and Ivanova, \{Natalia N.\} and Chen, \{I. Min\} and David Paez-Espino and Evangelos Karatzas and Acinas, \{Silvia G.\} and Nathan Ahlgren and Graeme Attwood and Petr Baldrian and Timothy Berry and Bhatnagar, \{Jennifer M.\} and Devaki Bhaya and Bidle, \{Kay D.\} and Blanchard, \{Jeffrey L.\} and Boyd, \{Eric S.\} and Bowen, \{Jennifer L.\} and Jeff Bowman and Brawley, \{Susan H.\} and Brodie, \{Eoin L.\} and Andreas Brune and Bryant, \{Donald A.\} and Alison Buchan and Hinsby Cadillo-Quiroz and Campbell, \{Barbara J.\} and Ricardo Cavicchioli and Chuckran, \{Peter F.\} and Maureen Coleman and Sean Crowe and Colman, \{Daniel R.\} and Currie, \{Cameron R.\} and Jeff Dangl and Nathalie Delherbe and Denef, \{Vincent J.\} and Paul Dijkstra and Distel, \{Daniel D.\} and Emiley Eloe-Fadrosh and Kirsten Fisher and Christopher Francis and Aaron Garoutte and Amelie Gaudin and Lena Gerwick and Filipa Godoy-Vitorino and Peter Guerra and Jiarong Guo and Habteselassie, \{Mussie Y.\} and Hallam, \{Steven J.\} and Roland Hatzenpichler and Ute Hentschel and Matthias Hess and Hirsch, \{Ann M.\} and Hug, \{Laura A.\} and Jenni Hultman and Hunt, \{Dana E.\} and Marcel Huntemann and Inskeep, \{William P.\} and James, \{Timothy Y.\} and Janet Jansson and Johnston, \{Eric R.\} and Marina Kalyuzhnaya and Kelly, \{Charlene N.\} and Kelly, \{Robert M.\} and Klassen, \{Jonathan L.\} and Klaus N{\"u}sslein and Kostka, \{Joel E.\} and Steven Lindow and Erik Lilleskov and Mackenzie Lynes and Rachel Mackelprang and Martin, \{Francis M.\} and Mason, \{Olivia U.\} and McKay, \{R. Michael\} and Katherine McMahon and Mead, \{David A.\} and Monica Medina and Meredith, \{Laura K.\} and Thomas Mock and Mohn, \{William W.\} and Moran, \{Mary Ann\} and Alison Murray and Neufeld, \{Josh D.\} and Rebecca Neumann and Norton, \{Jeanette M.\} and Partida-Martinez, \{Laila P.\} and Nicole Pietrasiak and Dale Pelletier and Reddy, \{T. B.K.\} and Reese, \{Brandi Kiel\} and Reichart, \{Nicholas J.\} and Rebecca Reiss and Saito, \{Mak A.\} and Schachtman, \{Daniel P.\} and Rekha Seshadri and Ashley Shade and David Sherman and Rachel Simister and Holly Simon and James Stegen and Ramunas Stepanauskas and Matthew Sullivan and Sumner, \{Dawn Y.\} and Hanno Teeling and Kimberlee Thamatrakoln and Kathleen Treseder and Susannah Tringe and Parag Vaishampayan and Valentine, \{David L.\} and Waldo, \{Nicholas B.\} and Waldrop, \{Mark P.\} and Walsh, \{David A.\} and Ward, \{David M.\} and Michael Wilkins and Thea Whitman and Jamie Woolet and Tanja Woyke and Ioannis Iliopoulos and Konstantinos Konstantinidis and Tiedje, \{James M.\} and Jennifer Pett-Ridge and David Baker and Axel Visel and Ouzounis, \{Christos A.\} and Sergey Ovchinnikov and Aydin Bulu{\c c} and Kyrpides, \{Nikos C.\}",

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doi = "10.1038/s41586-023-06583-7",

language = "English",

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AU - Baltoumas, Fotis A.

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AU - Selvitopi, Oguz

AU - Camargo, Antonio Pedro

AU - Nayfach, Stephen

AU - Azad, Ariful

AU - Roux, Simon

AU - Call, Lee

AU - Ivanova, Natalia N.

AU - Chen, I. Min

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AU - Karatzas, Evangelos

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AU - Bidle, Kay D.

AU - Blanchard, Jeffrey L.

AU - Boyd, Eric S.

AU - Bowen, Jennifer L.

AU - Bowman, Jeff

AU - Brawley, Susan H.

AU - Brodie, Eoin L.

AU - Brune, Andreas

AU - Bryant, Donald A.

AU - Buchan, Alison

AU - Cadillo-Quiroz, Hinsby

AU - Campbell, Barbara J.

AU - Cavicchioli, Ricardo

AU - Chuckran, Peter F.

AU - Coleman, Maureen

AU - Crowe, Sean

AU - Colman, Daniel R.

AU - Currie, Cameron R.

AU - Dangl, Jeff

AU - Delherbe, Nathalie

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AU - Gaudin, Amelie

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AU - Godoy-Vitorino, Filipa

AU - Guerra, Peter

AU - Guo, Jiarong

AU - Habteselassie, Mussie Y.

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AU - Hunt, Dana E.

AU - Huntemann, Marcel

AU - Inskeep, William P.

AU - James, Timothy Y.

AU - Jansson, Janet

AU - Johnston, Eric R.

AU - Kalyuzhnaya, Marina

AU - Kelly, Charlene N.

AU - Kelly, Robert M.

AU - Klassen, Jonathan L.

AU - Nüsslein, Klaus

AU - Kostka, Joel E.

AU - Lindow, Steven

AU - Lilleskov, Erik

AU - Lynes, Mackenzie

AU - Mackelprang, Rachel

AU - Martin, Francis M.

AU - Mason, Olivia U.

AU - McKay, R. Michael

AU - McMahon, Katherine

AU - Mead, David A.

AU - Medina, Monica

AU - Meredith, Laura K.

AU - Mock, Thomas

AU - Mohn, William W.

AU - Moran, Mary Ann

AU - Murray, Alison

AU - Neufeld, Josh D.

AU - Neumann, Rebecca

AU - Norton, Jeanette M.

AU - Partida-Martinez, Laila P.

AU - Pietrasiak, Nicole

AU - Pelletier, Dale

AU - Reddy, T. B.K.

AU - Reese, Brandi Kiel

AU - Reichart, Nicholas J.

AU - Reiss, Rebecca

AU - Saito, Mak A.

AU - Schachtman, Daniel P.

AU - Seshadri, Rekha

AU - Shade, Ashley

AU - Sherman, David

AU - Simister, Rachel

AU - Simon, Holly

AU - Stegen, James

AU - Stepanauskas, Ramunas

AU - Sullivan, Matthew

AU - Sumner, Dawn Y.

AU - Teeling, Hanno

AU - Thamatrakoln, Kimberlee

AU - Treseder, Kathleen

AU - Tringe, Susannah

AU - Vaishampayan, Parag

AU - Valentine, David L.

AU - Waldo, Nicholas B.

AU - Waldrop, Mark P.

AU - Walsh, David A.

AU - Ward, David M.

AU - Wilkins, Michael

AU - Whitman, Thea

AU - Woolet, Jamie

AU - Woyke, Tanja

AU - Iliopoulos, Ioannis

AU - Konstantinidis, Konstantinos

AU - Tiedje, James M.

AU - Pett-Ridge, Jennifer

AU - Baker, David

AU - Visel, Axel

AU - Ouzounis, Christos A.

AU - Ovchinnikov, Sergey

AU - Buluç, Aydin

AU - Kyrpides, Nikos C.

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VL - 622

SP - 594

EP - 602

JO - Nature

JF - Nature

IS - 7983

ER -

Unraveling the functional dark matter through global metagenomics

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