skip to main content
OSTI.GOV title logo U.S. Department of Energy
Office of Scientific and Technical Information

Title: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea

Abstract

We present two standards developed by the Genomic Standards Consortium (GSC) for reporting bacterial and archaeal genome sequences. Both are extensions of the Minimum Information about Any (x) Sequence (MIxS). The standards are the Minimum Information about a Single Amplified Genome (MISAG) and the Minimum Information about a Metagenome-Assembled Genome (MIMAG), including, but not limited to, assembly quality, and estimates of genome completeness and contamination. These standards can be used in combination with other GSC checklists, including the Minimum Information about a Genome Sequence (MIGS), Minimum Information about a Metagenomic Sequence (MIMS), and Minimum Information about a Marker Gene Sequence (MIMARKS). Community-wide adoption of MISAG and MIMAG will facilitate more robust comparative genomic analyses of bacterial and archaeal diversity.

Authors:
; ; ORCiD logo; ; ; ; ORCiD logo; ; ; ; ORCiD logo; ; ; ; ; ; ; ; ; more »; ; ; ; ORCiD logo; ; ; ; ; ORCiD logo; ; ; ; ; ; ; ; ; ; ; ORCiD logo; ; ; ; ; ORCiD logo; ; ; ; ; ORCiD logo; ORCiD logo; ; ; ; ORCiD logo; ; ; ; ORCiD logo; ; ORCiD logo; ORCiD logo; ORCiD logo; ; ; ; « less
Publication Date:
Research Org.:
Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
Sponsoring Org.:
USDOE Office of Science (SC), Biological and Environmental Research (BER) (SC-23)
OSTI Identifier:
1459393
DOE Contract Number:  
AC02-05CH11231
Resource Type:
Journal Article
Journal Name:
Nature Biotechnology
Additional Journal Information:
Journal Volume: 35; Journal Issue: 8; Journal ID: ISSN 1087-0156
Publisher:
Springer Nature
Country of Publication:
United States
Language:
English

Citation Formats

Bowers, Robert M., Kyrpides, Nikos C., Stepanauskas, Ramunas, Harmon-Smith, Miranda, Doud, Devin, Reddy, T. B. K., Schulz, Frederik, Jarett, Jessica, Rivers, Adam R., Eloe-Fadrosh, Emiley A., Tringe, Susannah G., Ivanova, Natalia N., Copeland, Alex, Clum, Alicia, Becraft, Eric D., Malmstrom, Rex R., Birren, Bruce, Podar, Mircea, Bork, Peer, Weinstock, George M., Garrity, George M., Dodsworth, Jeremy A., Yooseph, Shibu, Sutton, Granger, Glöckner, Frank O., Gilbert, Jack A., Nelson, William C., Hallam, Steven J., Jungbluth, Sean P., Ettema, Thijs J. G., Tighe, Scott, Konstantinidis, Konstantinos T., Liu, Wen-Tso, Baker, Brett J., Rattei, Thomas, Eisen, Jonathan A., Hedlund, Brian, McMahon, Katherine D., Fierer, Noah, Knight, Rob, Finn, Rob, Cochrane, Guy, Karsch-Mizrachi, Ilene, Tyson, Gene W., Rinke, Christian, Kyrpides, Nikos C., Schriml, Lynn, Garrity, George M., Hugenholtz, Philip, Sutton, Granger, Yilmaz, Pelin, Meyer, Folker, Glöckner, Frank O., Gilbert, Jack A., Knight, Rob, Finn, Rob, Cochrane, Guy, Karsch-Mizrachi, Ilene, Lapidus, Alla, Meyer, Folker, Yilmaz, Pelin, Parks, Donovan H., Eren, A. M., Schriml, Lynn, Banfield, Jillian F., Hugenholtz, Philip, and Woyke, Tanja. Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea. United States: N. p., 2017. Web. doi:10.1038/nbt.3893.
Bowers, Robert M., Kyrpides, Nikos C., Stepanauskas, Ramunas, Harmon-Smith, Miranda, Doud, Devin, Reddy, T. B. K., Schulz, Frederik, Jarett, Jessica, Rivers, Adam R., Eloe-Fadrosh, Emiley A., Tringe, Susannah G., Ivanova, Natalia N., Copeland, Alex, Clum, Alicia, Becraft, Eric D., Malmstrom, Rex R., Birren, Bruce, Podar, Mircea, Bork, Peer, Weinstock, George M., Garrity, George M., Dodsworth, Jeremy A., Yooseph, Shibu, Sutton, Granger, Glöckner, Frank O., Gilbert, Jack A., Nelson, William C., Hallam, Steven J., Jungbluth, Sean P., Ettema, Thijs J. G., Tighe, Scott, Konstantinidis, Konstantinos T., Liu, Wen-Tso, Baker, Brett J., Rattei, Thomas, Eisen, Jonathan A., Hedlund, Brian, McMahon, Katherine D., Fierer, Noah, Knight, Rob, Finn, Rob, Cochrane, Guy, Karsch-Mizrachi, Ilene, Tyson, Gene W., Rinke, Christian, Kyrpides, Nikos C., Schriml, Lynn, Garrity, George M., Hugenholtz, Philip, Sutton, Granger, Yilmaz, Pelin, Meyer, Folker, Glöckner, Frank O., Gilbert, Jack A., Knight, Rob, Finn, Rob, Cochrane, Guy, Karsch-Mizrachi, Ilene, Lapidus, Alla, Meyer, Folker, Yilmaz, Pelin, Parks, Donovan H., Eren, A. M., Schriml, Lynn, Banfield, Jillian F., Hugenholtz, Philip, & Woyke, Tanja. Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea. United States. doi:10.1038/nbt.3893.
Bowers, Robert M., Kyrpides, Nikos C., Stepanauskas, Ramunas, Harmon-Smith, Miranda, Doud, Devin, Reddy, T. B. K., Schulz, Frederik, Jarett, Jessica, Rivers, Adam R., Eloe-Fadrosh, Emiley A., Tringe, Susannah G., Ivanova, Natalia N., Copeland, Alex, Clum, Alicia, Becraft, Eric D., Malmstrom, Rex R., Birren, Bruce, Podar, Mircea, Bork, Peer, Weinstock, George M., Garrity, George M., Dodsworth, Jeremy A., Yooseph, Shibu, Sutton, Granger, Glöckner, Frank O., Gilbert, Jack A., Nelson, William C., Hallam, Steven J., Jungbluth, Sean P., Ettema, Thijs J. G., Tighe, Scott, Konstantinidis, Konstantinos T., Liu, Wen-Tso, Baker, Brett J., Rattei, Thomas, Eisen, Jonathan A., Hedlund, Brian, McMahon, Katherine D., Fierer, Noah, Knight, Rob, Finn, Rob, Cochrane, Guy, Karsch-Mizrachi, Ilene, Tyson, Gene W., Rinke, Christian, Kyrpides, Nikos C., Schriml, Lynn, Garrity, George M., Hugenholtz, Philip, Sutton, Granger, Yilmaz, Pelin, Meyer, Folker, Glöckner, Frank O., Gilbert, Jack A., Knight, Rob, Finn, Rob, Cochrane, Guy, Karsch-Mizrachi, Ilene, Lapidus, Alla, Meyer, Folker, Yilmaz, Pelin, Parks, Donovan H., Eren, A. M., Schriml, Lynn, Banfield, Jillian F., Hugenholtz, Philip, and Woyke, Tanja. Tue . "Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea". United States. doi:10.1038/nbt.3893. https://www.osti.gov/servlets/purl/1459393.
@article{osti_1459393,
title = {Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea},
author = {Bowers, Robert M. and Kyrpides, Nikos C. and Stepanauskas, Ramunas and Harmon-Smith, Miranda and Doud, Devin and Reddy, T. B. K. and Schulz, Frederik and Jarett, Jessica and Rivers, Adam R. and Eloe-Fadrosh, Emiley A. and Tringe, Susannah G. and Ivanova, Natalia N. and Copeland, Alex and Clum, Alicia and Becraft, Eric D. and Malmstrom, Rex R. and Birren, Bruce and Podar, Mircea and Bork, Peer and Weinstock, George M. and Garrity, George M. and Dodsworth, Jeremy A. and Yooseph, Shibu and Sutton, Granger and Glöckner, Frank O. and Gilbert, Jack A. and Nelson, William C. and Hallam, Steven J. and Jungbluth, Sean P. and Ettema, Thijs J. G. and Tighe, Scott and Konstantinidis, Konstantinos T. and Liu, Wen-Tso and Baker, Brett J. and Rattei, Thomas and Eisen, Jonathan A. and Hedlund, Brian and McMahon, Katherine D. and Fierer, Noah and Knight, Rob and Finn, Rob and Cochrane, Guy and Karsch-Mizrachi, Ilene and Tyson, Gene W. and Rinke, Christian and Kyrpides, Nikos C. and Schriml, Lynn and Garrity, George M. and Hugenholtz, Philip and Sutton, Granger and Yilmaz, Pelin and Meyer, Folker and Glöckner, Frank O. and Gilbert, Jack A. and Knight, Rob and Finn, Rob and Cochrane, Guy and Karsch-Mizrachi, Ilene and Lapidus, Alla and Meyer, Folker and Yilmaz, Pelin and Parks, Donovan H. and Eren, A. M. and Schriml, Lynn and Banfield, Jillian F. and Hugenholtz, Philip and Woyke, Tanja},
abstractNote = {We present two standards developed by the Genomic Standards Consortium (GSC) for reporting bacterial and archaeal genome sequences. Both are extensions of the Minimum Information about Any (x) Sequence (MIxS). The standards are the Minimum Information about a Single Amplified Genome (MISAG) and the Minimum Information about a Metagenome-Assembled Genome (MIMAG), including, but not limited to, assembly quality, and estimates of genome completeness and contamination. These standards can be used in combination with other GSC checklists, including the Minimum Information about a Genome Sequence (MIGS), Minimum Information about a Metagenomic Sequence (MIMS), and Minimum Information about a Marker Gene Sequence (MIMARKS). Community-wide adoption of MISAG and MIMAG will facilitate more robust comparative genomic analyses of bacterial and archaeal diversity.},
doi = {10.1038/nbt.3893},
journal = {Nature Biotechnology},
issn = {1087-0156},
number = 8,
volume = 35,
place = {United States},
year = {2017},
month = {8}
}

Works referenced in this record:

Minimum Information about a Biosynthetic Gene cluster
journal, August 2015

  • Medema, Marnix H.; Kottmann, Renzo; Yilmaz, Pelin
  • Nature Chemical Biology, Vol. 11, Issue 9
  • DOI: 10.1038/nchembio.1890

Anvi’o: an advanced analysis and visualization platform for ‘omics data
journal, January 2015

  • Eren, A. Murat; Esen, Özcan C.; Quince, Christopher
  • PeerJ, Vol. 3
  • DOI: 10.7717/peerj.1319

Comprehensive human genome amplification using multiple displacement amplification
journal, April 2002

  • Dean, F. B.; Hosono, S.; Fang, L.
  • Proceedings of the National Academy of Sciences, Vol. 99, Issue 8, p. 5261-5266
  • DOI: 10.1073/pnas.082089499

Lineages of Acidophilic Archaea Revealed by Community Genomic Analysis
journal, December 2006


The Binning of Metagenomic Contigs for Microbial Physiology of Mixed Cultures
journal, January 2012


The 160-Kilobase Genome of the Bacterial Endosymbiont Carsonella
journal, October 2006


Time series community genomics analysis reveals rapid shifts in bacterial species, strains, and phage during infant gut colonization
journal, August 2012

  • Sharon, I.; Morowitz, M. J.; Thomas, B. C.
  • Genome Research, Vol. 23, Issue 1
  • DOI: 10.1101/gr.142315.112

Fermentation, Hydrogen, and Sulfur Metabolism in Multiple Uncultivated Bacterial Phyla
journal, September 2012


Community-wide analysis of microbial genome sequence signatures
journal, January 2009

  • Dick, Gregory J.; Andersson, Anders F.; Baker, Brett J.
  • Genome Biology, Vol. 10, Issue 8
  • DOI: 10.1186/gb-2009-10-8-r85

The Human Microbiome Project
journal, October 2007

  • Turnbaugh, Peter J.; Ley, Ruth E.; Hamady, Micah
  • Nature, Vol. 449, Issue 7164
  • DOI: 10.1038/nature06244

MEGAHIT: an ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph
journal, January 2015


First genomic insights into members of a candidate bacterial phylum responsible for wastewater bulking
journal, January 2015

  • Sekiguchi, Yuji; Ohashi, Akiko; Parks, Donovan H.
  • PeerJ, Vol. 3
  • DOI: 10.7717/peerj.740

metaSPAdes: a new versatile metagenomic assembler
journal, March 2017

  • Nurk, Sergey; Meleshko, Dmitry; Korobeynikov, Anton
  • Genome Research, Vol. 27, Issue 5
  • DOI: 10.1101/gr.213959.116

Genomic Features of a Bumble Bee Symbiont Reflect Its Host Environment
journal, April 2014

  • Martinson, Vincent G.; Magoc, Tanja; Koch, Hauke
  • Applied and Environmental Microbiology, Vol. 80, Issue 13
  • DOI: 10.1128/AEM.00322-14

Ray Meta: scalable de novo metagenome assembly and profiling
journal, January 2012

  • Boisvert, Sébastien; Raymond, Frédéric; Godzaridis, Élénie
  • Genome Biology, Vol. 13, Issue 12
  • DOI: 10.1186/gb-2012-13-12-r122

Identification and Resolution of Microdiversity through Metagenomic Sequencing of Parallel Consortia
journal, October 2015

  • Nelson, William C.; Maezato, Yukari; Wu, Yu-Wei
  • Applied and Environmental Microbiology, Vol. 82, Issue 1
  • DOI: 10.1128/AEM.02274-15

ProDeGe: a computational protocol for fully automated decontamination of genomes
journal, June 2015

  • Tennessen, Kristin; Andersen, Evan; Clingenpeel, Scott
  • The ISME Journal, Vol. 10, Issue 1
  • DOI: 10.1038/ismej.2015.100

MaxBin: an automated binning method to recover individual genomes from metagenomes using an expectation-maximization algorithm
journal, August 2014


A R ickettsiales symbiont of amoebae with ancient features
journal, June 2015

  • Schulz, Frederik; Martijn, Joran; Wascher, Florian
  • Environmental Microbiology, Vol. 18, Issue 8
  • DOI: 10.1111/1462-2920.12881

Differential Genome Evolution Between Companion Symbionts in an Insect-Bacterial Symbiosis
journal, September 2014

  • Bennett, Gordon M.; McCutcheon, John P.; MacDonald, Bradon R.
  • mBio, Vol. 5, Issue 5
  • DOI: 10.1128/mBio.01697-14

The future is now: single-cell genomics of bacteria and archaea
journal, May 2013


Single-cell genomic sequencing using Multiple Displacement Amplification
journal, October 2007


Decontamination of MDA Reagents for Single Cell Whole Genome Amplification
journal, October 2011


Fast Identification and Removal of Sequence Contamination from Genomic and Metagenomic Datasets
journal, March 2011


SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing
journal, May 2012

  • Bankevich, Anton; Nurk, Sergey; Antipov, Dmitry
  • Journal of Computational Biology, Vol. 19, Issue 5
  • DOI: 10.1089/cmb.2012.0021

Unusual biology across a group comprising more than 15% of domain Bacteria
journal, June 2015

  • Brown, Christopher T.; Hug, Laura A.; Thomas, Brian C.
  • Nature, Vol. 523, Issue 7559
  • DOI: 10.1038/nature14486

The bacterial species definition in the genomic era
journal, October 2006

  • Konstantinidis, Konstantinos T.; Ramette, Alban; Tiedje, James M.
  • Philosophical Transactions of the Royal Society B: Biological Sciences, Vol. 361, Issue 1475
  • DOI: 10.1098/rstb.2006.1920

Reconstructing each cell's genome within complex microbial communities—dream or reality?
journal, January 2015


Genome sequences of rare, uncultured bacteria obtained by differential coverage binning of multiple metagenomes
journal, May 2013

  • Albertsen, Mads; Hugenholtz, Philip; Skarshewski, Adam
  • Nature Biotechnology, Vol. 31, Issue 6
  • DOI: 10.1038/nbt.2579

A simple, fast, and accurate method of phylogenomic inference
journal, January 2008


Assembling the Marine Metagenome, One Cell at a Time
journal, April 2009


rrndb: the Ribosomal RNA Operon Copy Number Database
journal, January 2001


GroopM: an automated tool for the recovery of population genomes from related metagenomes
journal, January 2014

  • Imelfort, Michael; Parks, Donovan; Woodcroft, Ben J.
  • PeerJ, Vol. 2
  • DOI: 10.7717/peerj.603

Insights into the phylogeny and coding potential of microbial dark matter
journal, July 2013

  • Rinke, Christian; Schwientek, Patrick; Sczyrba, Alexander
  • Nature, Vol. 499, Issue 7459
  • DOI: 10.1038/nature12352

Highlight: Tiniest of the Tiny--A New Low for Genome Size
journal, January 2013


Prevalent genome streamlining and latitudinal divergence of planktonic bacteria in the surface ocean
journal, June 2013

  • Swan, B. K.; Tupper, B.; Sczyrba, A.
  • Proceedings of the National Academy of Sciences, Vol. 110, Issue 28
  • DOI: 10.1073/pnas.1304246110

Extraordinary phylogenetic diversity and metabolic versatility in aquifer sediment
journal, August 2013

  • Castelle, Cindy J.; Hug, Laura A.; Wrighton, Kelly C.
  • Nature Communications, Vol. 4, Issue 1
  • DOI: 10.1038/ncomms3120

A phylogeny-driven genomic encyclopaedia of Bacteria and Archaea
journal, December 2009

  • Wu, Dongying; Hugenholtz, Philip; Mavromatis, Konstantinos
  • Nature, Vol. 462, Issue 7276
  • DOI: 10.1038/nature08656

Single-Molecule DNA Sequencing of a Viral Genome
journal, April 2008


The Uncultured Microbial Majority
journal, October 2003


Genomic DNA Amplification from a Single Bacterium
journal, June 2005


One Bacterial Cell, One Complete Genome
journal, April 2010


Phylogenomic analysis of bacterial and archaeal sequences with AMPHORA2
journal, February 2012


Environmental Genomics Reveals a Single-Species Ecosystem Deep Within Earth
journal, October 2008


Genome Project Standards in a New Era of Sequencing
journal, October 2009


Matching phylogeny and metabolism in the uncultured marine bacteria, one cell at a time
journal, May 2007

  • Stepanauskas, R.; Sieracki, M. E.
  • Proceedings of the National Academy of Sciences, Vol. 104, Issue 21
  • DOI: 10.1073/pnas.0700496104

Single cell genomics: an individual look at microbes
journal, October 2012


Symbiosis insights through metagenomic analysis of a microbial consortium
journal, September 2006

  • Woyke, Tanja; Teeling, Hanno; Ivanova, Natalia N.
  • Nature, Vol. 443, Issue 7114
  • DOI: 10.1038/nature05192

Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications
journal, May 2011

  • Yilmaz, Pelin; Kottmann, Renzo; Field, Dawn
  • Nature Biotechnology, Vol. 29, Issue 5
  • DOI: 10.1038/nbt.1823

Accurate Multiplex Polony Sequencing of an Evolved Bacterial Genome
journal, September 2005


BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs
journal, June 2015


An Expanded Genomic Representation of the Phylum Cyanobacteria
journal, May 2014

  • Soo, Rochelle M.; Skennerton, Connor T.; Sekiguchi, Yuji
  • Genome Biology and Evolution, Vol. 6, Issue 5
  • DOI: 10.1093/gbe/evu073

Community genomics in microbial ecology and evolution
journal, June 2005

  • Allen, Eric E.; Banfield, Jillian F.
  • Nature Reviews Microbiology, Vol. 3, Issue 6
  • DOI: 10.1038/nrmicro1157

The Earth Microbiome project: successes and aspirations
journal, August 2014


Single-cell sequencing in its prime
journal, March 2013


acdc – Automated Contamination Detection and Confidence estimation for single-cell genome data
journal, December 2016


UGA is an additional glycine codon in uncultured SR1 bacteria from the human microbiota
journal, March 2013

  • Campbell, J. H.; O'Donoghue, P.; Campbell, A. G.
  • Proceedings of the National Academy of Sciences, Vol. 110, Issue 14, p. 5540-5545
  • DOI: 10.1073/pnas.1303090110

Central Role of the Cell in Microbial Ecology
journal, November 2009


Genomic sequencing of uncultured microorganisms from single cells
journal, August 2012


IDBA-UD: a de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth
journal, April 2012


Single-cell genomics
journal, June 2006

  • Hutchison, Clyde A.; Venter, J. Craig
  • Nature Biotechnology, Vol. 24, Issue 6
  • DOI: 10.1038/nbt0606-657

The Genomes OnLine Database (GOLD) v.5: a metadata management system based on a four level (meta)genome project classification
journal, October 2014

  • Reddy, T. B. K.; Thomas, Alex D.; Stamatis, Dimitri
  • Nucleic Acids Research, Vol. 43, Issue D1
  • DOI: 10.1093/nar/gku950

Accurate and universal delineation of prokaryotic species
journal, July 2013

  • Mende, Daniel R.; Sunagawa, Shinichi; Zeller, Georg
  • Nature Methods, Vol. 10, Issue 9
  • DOI: 10.1038/nmeth.2575

Environmental Genome Shotgun Sequencing of the Sargasso Sea
journal, April 2004


Multiple displacement amplification compromises quantitative analysis of metagenomes
journal, November 2010

  • Yilmaz, Suzan; Allgaier, Martin; Hugenholtz, Philip
  • Nature Methods, Vol. 7, Issue 12
  • DOI: 10.1038/nmeth1210-943

A Quantitative Comparison of Single-Cell Whole Genome Amplification Methods
journal, August 2014


Metagenomic species profiling using universal phylogenetic marker genes
journal, October 2013

  • Sunagawa, Shinichi; Mende, Daniel R.; Zeller, Georg
  • Nature Methods, Vol. 10, Issue 12
  • DOI: 10.1038/nmeth.2693

Global metagenomic survey reveals a new bacterial candidate phylum in geothermal springs
journal, January 2016

  • Eloe-Fadrosh, Emiley A.; Paez-Espino, David; Jarett, Jessica
  • Nature Communications, Vol. 7, Issue 1
  • DOI: 10.1038/ncomms10476

Genomes from Metagenomics
journal, November 2013


Identification and assembly of genomes and genetic elements in complex metagenomic samples without using reference genomes
journal, July 2014

  • Nielsen, H. Bjørn; Almeida, Mathieu; Juncker, Agnieszka Sierakowska
  • Nature Biotechnology, Vol. 32, Issue 8
  • DOI: 10.1038/nbt.2939

Community structure and metabolism through reconstruction of microbial genomes from the environment
journal, February 2004

  • Tyson, Gene W.; Chapman, Jarrod; Hugenholtz, Philip
  • Nature, Vol. 428, Issue 6978
  • DOI: 10.1038/nature02340

Classification of metagenomic sequences: methods and challenges
journal, September 2012

  • Mande, S. S.; Mohammed, M. H.; Ghosh, T. S.
  • Briefings in Bioinformatics, Vol. 13, Issue 6
  • DOI: 10.1093/bib/bbs054

The minimum information about a genome sequence (MIGS) specification
journal, May 2008

  • Field, Dawn; Garrity, George; Gray, Tanya
  • Nature Biotechnology, Vol. 26, Issue 5
  • DOI: 10.1038/nbt1360

Methylotrophic methanogenesis discovered in the archaeal phylum Verstraetearchaeota
journal, October 2016


Accurate whole human genome sequencing using reversible terminator chemistry
journal, November 2008

  • Bentley, David R.; Balasubramanian, Shankar; Swerdlow, Harold P.
  • Nature, Vol. 456, Issue 7218
  • DOI: 10.1038/nature07517

PhyloSift: phylogenetic analysis of genomes and metagenomes
journal, January 2014

  • Darling, Aaron E.; Jospin, Guillaume; Lowe, Eric
  • PeerJ, Vol. 2
  • DOI: 10.7717/peerj.243

Mechanism of chimera formation during the Multiple Displacement Amplification reaction
journal, January 2007


Obtaining genomes from uncultivated environmental microorganisms using FACS–based single-cell genomics
journal, April 2014


Genome sequencing in microfabricated high-density picolitre reactors
journal, July 2005

  • Margulies, Marcel; Egholm, Michael; Altman, William E.
  • Nature, Vol. 437, Issue 7057, p. 376-380
  • DOI: 10.1038/nature03959

Thousands of microbial genomes shed light on interconnected biogeochemical processes in an aquifer system
journal, October 2016

  • Anantharaman, Karthik; Brown, Christopher T.; Hug, Laura A.
  • Nature Communications, Vol. 7, Issue 1
  • DOI: 10.1038/ncomms13219

The human gut and groundwater harbor non-photosynthetic bacteria belonging to a new candidate phylum sibling to Cyanobacteria
journal, October 2013


MIxS-BE: a MIxS extension defining a minimum information standard for sequence data from the built environment
journal, October 2013

  • Glass, Elizabeth M.; Dribinsky, Yekaterina; Yilmaz, Pelin
  • The ISME Journal, Vol. 8, Issue 1
  • DOI: 10.1038/ismej.2013.176

Dissecting biological "dark matter" with single-cell genetic analysis of rare and uncultivated TM7 microbes from the human mouth
journal, July 2007

  • Marcy, Y.; Ouverney, C.; Bik, E. M.
  • Proceedings of the National Academy of Sciences, Vol. 104, Issue 29, p. 11889-11894
  • DOI: 10.1073/pnas.0704662104

Metagenomic Discovery of Biomass-Degrading Genes and Genomes from Cow Rumen
journal, January 2011


RubisCO of a nucleoside pathway known from Archaea is found in diverse uncultivated phyla in bacteria
journal, May 2016

  • Wrighton, Kelly C.; Castelle, Cindy J.; Varaljay, Vanessa A.
  • The ISME Journal, Vol. 10, Issue 11
  • DOI: 10.1038/ismej.2016.53

    Works referencing / citing this record:

    Annotated bacterial chromosomes from frame-shift-corrected long-read metagenomic data
    journal, April 2019


    Disentangling the drivers of functional complexity at the metagenomic level in Shark Bay microbial mat microbiomes
    journal, July 2018

    • Wong, Hon Lun; White, Richard Allen; Visscher, Pieter T.
    • The ISME Journal, Vol. 12, Issue 11
    • DOI: 10.1038/s41396-018-0208-8

    Integrated multi-omic analysis of host-microbiota interactions in acute oak decline
    journal, January 2018


    Dynamics of microbial populations mediating biogeochemical cycling in a freshwater lake
    journal, September 2018


    bin3C: exploiting Hi-C sequencing data to accurately resolve metagenome-assembled genomes
    journal, February 2019


    Bacterial and Archaeal Metagenome-Assembled Genome Sequences from Svalbard Permafrost
    journal, July 2019

    • Xue, Yaxin; Jonassen, Inge; Øvreås, Lise
    • Microbiology Resource Announcements, Vol. 8, Issue 27
    • DOI: 10.1128/mra.00516-19

    Metagenomic investigation of vestimentiferan tubeworm endosymbionts from Mid-Cayman Rise reveals new insights into metabolism and diversity
    journal, January 2018