The microbial ocean from genomes to biomes

Genome sequencing in microfabricated high-density picolitre reactors

Margulies, M., Egholm, M., Altman, W. E., Attiya, S., Bader, J. S., Bemben, L. A., Berka, J., Braverman, M. S., Chen, Y.-J., Chen, Z., et al. (2005) · Nature · doi:10.1038/nature03959 · Cited by 7,693

The human microbiome project

Turnbaugh, P. J., Ley, R. E., Hamady, M., Fraser-Liggett, C. M., Knight, R., & Gordon, J. I. (2007) · Nature · doi:10.1038/nature06244 · Cited by 6,091

Environmental genome shotgun sequencing of the sargasso sea

Venter, J. C., Remington, K., Heidelberg, J. F., Halpern, A. L., Rusch, D., Eisen, J. A., Wu, D., Paulsen, I., Nelson, K. E., Nelson, W., et al. (2004) · Science · doi:10.1126/science.1093857 · Cited by 4,376

Real-Time DNA Sequencing from Single Polymerase Molecules

Eid, J., Fehr, A., Gray, J., Luong, K., Lyle, J., Otto, G., Peluso, P., Rank, D., Baybayan, P., Bettman, B., et al. (2009) · Science · doi:10.1126/science.1162986 · Cited by 3,732

The metagenomics RAST server – a public resource for the automatic phylogenetic and functional analysis of metagenomes

Meyer, F., Paarmann, D., D'Souza, M., Olson, R., Glass, E., Kubal, M., Paczian, T., Rodriguez, A., Stevens, R. L., Wilke, A., et al. (2008) · BMC Bioinformatics · doi:10.1186/1471-2105-9-386 · Cited by 3,565

Isolation of an autotrophic ammonia-oxidizing marine archaeon

Könneke, M., Bernhard, A. E., de la Torre, J. R., Walker, C. B., Waterbury, J. B., & Stahl, D. A. (2005) · Nature · doi:10.1038/nature03911 · Cited by 2,864

A Molecular View of Microbial Diversity and the Biosphere

Pace, N. R. (1997) · Science · doi:10.1126/science.276.5313.734 · Cited by 2,797

Community structure and metabolism through reconstruction of microbial genomes from the environment

Tyson, G. W., Chapman, J., Hugenholtz, P., Allen, E. E., Ram, R. J., Richardson, P. M., Solovyev, V. V., Rubin, E. M., Rokhsar, D. S., & Banfield, J. F. (2004) · Nature · doi:10.1038/nature02340 · Cited by 2,417

The Sorcerer II Global Ocean Sampling Expedition: Northwest Atlantic through Eastern Tropical Pacific

Rusch, D. B., Halpern, A. L., Sutton, G. G., Heidelberg, K. B., Williamson, S. J., Yooseph, S., Wu, D., Eisen, J. A., Hoffman, J., Remington, K., et al. (2007) · PLoS Biology · doi:10.1371/journal.pbio.0050077 · Cited by 2,044

The Uncultured Microbial Majority

Rappé, M. S., & Giovannoni, S. J. (2003) · Annual Review of Microbiology · doi:10.1146/annurev.micro.57.030502.090759 · Cited by 2,017

Comparative Metagenomics of Microbial Communities

Tringe, S. G., von Mering, C., Kobayashi, A., Salamov, A. A., Chen, K., Chang, H. W., Podar, M., Short, J. M., Mathur, E. J., Detter, J. C., et al. (2005) · Science · doi:10.1126/science.1107851 · Cited by 1,677

Bacterial Rhodopsin: Evidence for a New Type of Phototrophy in the Sea

Béjà, O., Aravind, L., Koonin, E. V., Suzuki, M. T., Hadd, A. G., Nguyen, L. P., Jovanovich, S. B., Gates, C. M., Feldman, R. A., Spudich, J. L., et al. (2000) · Science · doi:10.1126/science.289.5486.1902 · Cited by 1,532

MEASUREMENT OF IN SITU ACTIVITIES OF NONPHOTOSYNTHETIC MICROORGANISMS IN AQUATIC AND TERRESTRIAL HABITATS

Staley, J. T., & Konopka, A. E. (1985) · Annual Review of Microbiology · doi:10.1146/annurev.mi.39.100185.001541 · Cited by 1,512

Community Genomics Among Stratified Microbial Assemblages in the Ocean's Interior

DeLong, E. F., Preston, C. M., Mincer, T. J., Rich, V. I., Hallam, S., Frigaard, N., Martinez, A., Sullivan, M. B., Edwards, R. A., Brito, B. R., et al. (2006) · Science · doi:10.1126/science.1120250 · Cited by 1,319

Genome Streamlining in a Cosmopolitan Oceanic Bacterium

Giovannoni, S. J., Tripp, H. J., Givan, S. A., Podar, M., Vergin, K. L., Baptista, D., Bibbs, L., Eads, J. R., Richardson, T. H., Noordewier, M. O., et al. (2005) · Science · doi:10.1126/science.1114057 · Cited by 1,224

A novel free-living prochlorophyte abundant in the oceanic euphotic zone

Chisholm, S. W., Olson, R. J., Zettler, E., Goericke, R., Waterbury, J. B., & Welschmeyer, N. A. (1988) · Nature · doi:10.1038/334340a0 · Cited by 1,181

MetaGene: prokaryotic gene finding from environmental genome shotgun sequences

Noguchi, H., Park, J., & Takagi, T. (2006) · Nucleic Acids Research · doi:10.1093/nar/gkl723 · Cited by 1,156

The minimum information about a genome sequence (MIGS) specification

Field, D., Garrity, G. M., Gray, T., Morrison, N., Selengut, J., Sterk, P., Tatusova, T. A., Thomson, N. R., Allen, M. J., Angiuoli, S. V., et al. (2008) · Nature Biotechnology · doi:10.1038/nbt1360 · Cited by 1,148

Cultivation of the ubiquitous SAR11 marine bacterioplankton clade

Rappé, M. S., Connon, S. A., Vergin, K. L., & Giovannoni, S. J. (2002) · Nature · doi:10.1038/nature00917 · Cited by 1,020

Functional metagenomic profiling of nine biomes

Dinsdale, E. A., Edwards, R. A., Hall, D., Angly, F., Breitbart, M., Brulc, J. M., Furlan, M., Desnues, C., Haynes, M., Li, L., et al. (2008) · Nature · doi:10.1038/nature06810 · Cited by 980

The Sorcerer II Global Ocean Sampling Expedition: Expanding the Universe of Protein Families

Yooseph, S., Sutton, G., Rusch, D. B., Halpern, A. L., Williamson, S. J., Remington, K., Eisen, J. A., Heidelberg, K. B., Manning, G., Li, W., et al. (2007) · PLoS Biology · doi:10.1371/journal.pbio.0050016 · Cited by 925

Emergent Biogeography of Microbial Communities in a Model Ocean

Follows, M. J., Dutkiewicz, S., Grant, S. R., & Chisholm, S. W. (2007) · Science · doi:10.1126/science.1138544 · Cited by 878

Novel genes for nitrite reductase and Amo‐related proteins indicate a role of uncultivated mesophilic crenarchaeota in nitrogen cycling

Treusch, A. H., Leininger, S., Kletzin, A., Schuster, S. C., Klenk, H., & Schleper, C. (2005) · Environmental Microbiology · doi:10.1111/j.1462-2920.2005.00906.x · Cited by 860

Proteorhodopsin phototrophy in the ocean

Béjà, O., Spudich, E. N., Spudich, J. L., Leclerc, M., & DeLong, E. F. (2001) · Nature · doi:10.1038/35081051 · Cited by 802

Microbial community gene expression in ocean surface waters

Frias‐Lopez, J., Shi, Y., Tyson, G. W., Coleman, M. L., Schuster, S. C., Chisholm, S. W., & DeLong, E. F. (2008) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0708897105 · Cited by 787

High-Throughput Methods for Culturing Microorganisms in Very-Low-Nutrient Media Yield Diverse New Marine Isolates

Connon, S. A., & Giovannoni, S. J. (2002) · Applied and Environmental Microbiology · doi:10.1128/aem.68.8.3878-3885.2002 · Cited by 742

Dissecting biological “dark matter” with single-cell genetic analysis of rare and uncultivated TM7 microbes from the human mouth

Marcy, Y., Ouverney, C., Bik, E. M., Lösekann, T., Ivanova, N., Martín, H. G., Szeto, E., Platt, D., Hugenholtz, P., Relman, D. A., et al. (2007) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0704662104 · Cited by 632

Annually reoccurring bacterial communities are predictable from ocean conditions

Fuhrman, J. A., Hewson, I., Schwalbach, M. S., Steele, J. A., Brown, M. V., & Naeem, S. (2006) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0602399103 · Cited by 624

Cyanophages infecting the oceanic cyanobacterium Prochlorococcus

Sullivan, M. B., Waterbury, J. B., & Chisholm, S. W. (2003) · Nature · doi:10.1038/nature01929 · Cited by 584

Pathways of Carbon Assimilation and Ammonia Oxidation Suggested by Environmental Genomic Analyses of Marine Crenarchaeota

Hallam, S., Mincer, T. J., Schleper, C., Preston, C. M., Roberts, K., Richardson, P. M., & DeLong, E. F. (2006) · PLoS Biology · doi:10.1371/journal.pbio.0040095 · Cited by 572

Genomic analysis of the uncultivated marine crenarchaeote Cenarchaeum symbiosum

Hallam, S., Konstantinidis, K., Putnam, N. H., Schleper, C., Watanabe, Y., Sugahara, J., Preston, C. M., de la Torre, J. R., Richardson, P. M., & DeLong, E. F. (2006) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0608549103 · Cited by 446

Prochlorococcus marinus nov. gen. nov. sp.: an oxyphototrophic marine prokaryote containing divinyl chlorophyll a and b

Chisholm, S. W., Frankel, S. L., Goericke, R., Olson, R. J., Palenik, B. P., Waterbury, J. B., West-Johnsrud, L., & Zettler, E. (1992) · Archives of Microbiology · doi:10.1007/bf00245165 · Cited by 425

Unsuspected diversity among marine aerobic anoxygenic phototrophs

Béjà, O., Suzuki, M. T., Heidelberg, J. F., Nelson, W. C., Preston, C. M., Hamada, T., Eisen, J. A., Fraser, C. M., & DeLong, E. F. (2002) · Nature · doi:10.1038/415630a · Cited by 423

Genome-Wide Experimental Determination of Barriers to Horizontal Gene Transfer

Sorek, R., Zhu, Y., Creevey, C. J., Francino, M. P., Bork, P., & Rubin, E. M. (2007) · Science · doi:10.1126/science.1147112 · Cited by 421

Light stimulates growth of proteorhodopsin-containing marine Flavobacteria

Gómez‐Consarnau, L., González, J. M., Coll‐Lladó, M., Gourdon, P. E., Pascher, T., Neutze, R., Pedrós‐Alió, C., & Pinhassi, J. (2007) · Nature · doi:10.1038/nature05381 · Cited by 404

CAMERA: A Community Resource for Metagenomics

Seshadri, R., Kravitz, S. A., Smarr, L. L., Gilna, P., & Frazier, M. E. (2007) · PLoS Biology · doi:10.1371/journal.pbio.0050075 · Cited by 394

IMG/M: a data management and analysis system for metagenomes

Markowitz, V. M., Ivanova, N., Szeto, E., Palaniappan, K., Chu, K., Dalevi, D., Chen, I.-M. A., Grechkin, Y., Dubchak, I. L., Anderson, I., et al. (2007) · Nucleic Acids Research · doi:10.1093/nar/gkm869 · Cited by 392

SAR11 marine bacteria require exogenous reduced sulphur for growth

Tripp, H. J., Kitner, J. B., Schwalbach, M. S., Dacey, J. W. H., Wilhelm, L., & Giovannoni, S. J. (2008) · Nature · doi:10.1038/nature06776 · Cited by 379

Construction and analysis of bacterial artificial chromosome libraries from a marine microbial assemblage

Béjà, O., Suzuki, M. T., Koonin, E. V., Aravind, L., Hadd, A. G., Nguyen, L. P., Villacorta, R., Amjadi, M., Garrigues, C., Jovanovich, S. B., et al. (2000) · Environmental Microbiology · doi:10.1046/j.1462-2920.2000.00133.x · Cited by 365

Quantitative Phylogenetic Assessment of Microbial Communities in Diverse Environments

von Mering, C., Hugenholtz, P., Raes, J., Tringe, S. G., Doerks, T., Jensen, L., Ward, N. L., & Bork, P. (2007) · Science · doi:10.1126/science.1133420 · Cited by 356

Globally Distributed Uncultivated Oceanic N 2 -Fixing Cyanobacteria Lack Oxygenic Photosystem II

Zehr, J. P., Bench, S. R., Carter, B. J., Hewson, I., Niazi, F., Shi, T., Tripp, H. J., & Affourtit, J. P. (2008) · Science · doi:10.1126/science.1165340 · Cited by 353

Genome-wide expression dynamics of a marine virus and host reveal features of co-evolution

Lindell, D., Jaffe, J. D., Coleman, M. L., Futschik, M. E., Axmann, I. M. I., Rector, T. L., Kettler, G. C., Sullivan, M. B., Steen, R., Hess, W. R., et al. (2007) · Nature · doi:10.1038/nature06130 · Cited by 352

Long-term changes in plankton community structure and productivity in the North Pacific Subtropical Gyre: The domain shift hypothesis

Karl, D. M., Bidigare, R. R., & Letelier, R. M. (2001) · Deep Sea Research Part II Topical Studies in Oceanography · doi:10.1016/s0967-0645(00)00149-1 · Cited by 349

Proteorhodopsin in the ubiquitous marine bacterium SAR11

Giovannoni, S. J., Bibbs, L., Cho, J., Stapels, M. D., Desiderio, R. A., Vergin, K. L., Rappé, M. S., Laney, S. R., Wilhelm, L. J., Tripp, H. J., et al. (2005) · Nature · doi:10.1038/nature04032 · Cited by 337

Mechanism of chimera formation during the Multiple Displacement Amplification reaction

Lasken, R. S., & Stockwell, T. B. (2007) · BMC Biotechnology · doi:10.1186/1472-6750-7-19 · Cited by 328

Proteorhodopsin lateral gene transfer between marine planktonic Bacteria and Archaea

Frigaard, N., Martinez, A., Mincer, T. J., & DeLong, E. F. (2006) · Nature · doi:10.1038/nature04435 · Cited by 325

Phylogenetic classification of short environmental DNA fragments

Krause, L., Diaz, N. N., Goesmann, A., Kelley, S. T., Nattkemper, T. W., Rohwer, F. L., Edwards, R. A., & Stoye, J. (2008) · Nucleic Acids Research · doi:10.1093/nar/gkn038 · Cited by 286

Who eats what, where and when? Isotope-labelling experiments are coming of age

Neufeld, J. D., Wagner, M., & Murrell, J. C. (2007) · The ISME Journal · doi:10.1038/ismej.2007.30 · Cited by 284

Metatranscriptomics reveals unique microbial small RNAs in the ocean’s water column

Shi, Y., Tyson, G. W., & DeLong, E. F. (2009) · Nature · doi:10.1038/nature08055 · Cited by 279

Proteorhodopsin genes are distributed among divergent marine bacterial taxa

de la Torre, J. R., Christianson, L. M., Béjà, O., Suzuki, M. T., Karl, D. M., Heidelberg, J. F., & DeLong, E. F. (2003) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.2133554100 · Cited by 277

Genome-Directed Isolation of the Key Nitrogen Fixer Leptospirillum ferrodiazotrophum sp. nov. from an Acidophilic Microbial Community

Tyson, G. W., Lo, I., Baker, B. J., Allen, E. E., Hugenholtz, P., & Banfield, J. F. (2005) · Applied and Environmental Microbiology · doi:10.1128/aem.71.10.6319-6324.2005 · Cited by 256

New Insights into Metabolic Properties of Marine Bacteria Encoding Proteorhodopsins

Sabehi, G., Loy, A., Jung, K.-H., Partha, R., Spudich, J. L., Isaacson, ‎., Hirschberg, J., Wagner, M., & Béjà, O. (2005) · PLoS Biology · doi:10.1371/journal.pbio.0030273 · Cited by 253

Analysis of Microbial Gene Transcripts in Environmental Samples

Poretsky, R. S., Bano, N., Buchan, A., LeCleir, G. R., Kleikemper, J., Pickering, M., Pate, W. M., Moran, M. A., & Hollibaugh, J. T. (2005) · Applied and Environmental Microbiology · doi:10.1128/aem.71.7.4121-4126.2005 · Cited by 242

Selective aluminum passivation for targeted immobilization of single DNA polymerase molecules in zero-mode waveguide nanostructures

Korlach, J., Marks, P., Cicero, R. L., Gray, J. J., Murphy, D. L., Roitman, D. B., Pham, T. T., Otto, G. A., Foquet, M., & Turner, S. (2008) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0710982105 · Cited by 236

Something from (almost) nothing: the impact of multiple displacement amplification on microbial ecology

Binga, E. K., Lasken, R. S., & Neufeld, J. D. (2008) · The ISME Journal · doi:10.1038/ismej.2008.10 · Cited by 229

Proteorhodopsin photosystem gene expression enables photophosphorylation in a heterologous host

Martinez, A., Bradley, A. S., Waldbauer, J., Summons, R. E., & DeLong, E. F. (2007) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0611470104 · Cited by 207

Quantifying environmental adaptation of metabolic pathways in metagenomics

Gianoulis, T. A., Raes, J., Patel, P. V., Bjornson, R. D., Korbel, J. O., Letunić, I., Yamada, T., Paccanaro, A., Jensen, L. J., Snyder, M. P., et al. (2009) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0808022106 · Cited by 204

Microbial oceanography: paradigms, processes and promise

Karl, D. M. (2007) · Nature Reviews Microbiology · doi:10.1038/nrmicro1749 · Cited by 203

The small genome of an abundant coastal ocean methylotroph

Giovannoni, S. J., Hayakawa, D. H., Tripp, H. J., Stingl, U., Givan, S. A., Cho, J., Oh, H., Kitner, J. B., Vergin, K. L., & Rappé, M. S. (2008) · Environmental Microbiology · doi:10.1111/j.1462-2920.2008.01598.x · Cited by 200

The importance of culturing bacterioplankton in the 'omics' age

Giovannoni, S. J., & Stingl, U. (2007) · Nature Reviews Microbiology · doi:10.1038/nrmicro1752 · Cited by 193

Improvements of high-throughput culturing yielded novel SAR11 strains and other abundant marine bacteria from the Oregon coast and the Bermuda Atlantic Time Series study site

Stingl, U., Tripp, H. J., & Giovannoni, S. J. (2007) · The ISME Journal · doi:10.1038/ismej.2007.49 · Cited by 170

An application of statistics to comparative metagenomics

Rodriguez-Brito, B., Rohwer, F. L., & Edwards, R. A. (2006) · BMC Bioinformatics · doi:10.1186/1471-2105-7-162 · Cited by 151

Genomic sequencing of single microbial cells from environmental samples

Ishoey, T., Woyke, T., Stepanauskas, R., Novotny, M. A., & Lasken, R. S. (2008) · Current Opinion in Microbiology · doi:10.1016/j.mib.2008.05.006 · Cited by 151

The SAR92 Clade: an Abundant Coastal Clade of Culturable Marine Bacteria Possessing Proteorhodopsin

Stingl, U., Desiderio, R. A., Cho, J., Vergin, K. L., & Giovannoni, S. J. (2007) · Applied and Environmental Microbiology · doi:10.1128/aem.02559-06 · Cited by 142

Characterization of a marine gammaproteobacterium capable of aerobic anoxygenic photosynthesis

Fuchs, B. M., Spring, S., Teeling, H., Quast, C., Wulf, J., Schattenhofer, M., Yan, S., Ferriera, S., Johnson, J. H., Glöckner, F. O., et al. (2007) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0608046104 · Cited by 137

Genome dynamics in a natural archaeal population

Allen, E. E., Tyson, G. W., Whitaker, R. J., Detter, J. C., Richardson, P. M., & Banfield, J. F. (2007) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0604851104 · Cited by 131

Proteorhodopsin photosystem gene clusters exhibit co‐evolutionary trends and shared ancestry among diverse marine microbial phyla

McCarren, J., & DeLong, E. F. (2007) · Environmental Microbiology · doi:10.1111/j.1462-2920.2006.01203.x · Cited by 123

Phylogenetic analyses of ribosomal DNA‐containing bacterioplankton genome fragments from a 4000 m vertical profile in the North Pacific Subtropical Gyre

Pham, V. D., Konstantinidis, K. T., Palden, T., & DeLong, E. F. (2008) · Environmental Microbiology · doi:10.1111/j.1462-2920.2008.01657.x · Cited by 121

Different SAR86 subgroups harbour divergent proteorhodopsins

Sabehi, G., Béjà, O., Suzuki, M. T., Preston, C. M., & DeLong, E. F. (2004) · Environmental Microbiology · doi:10.1111/j.1462-2920.2004.00676.x · Cited by 116

Novel Proteorhodopsin variants from the Mediterranean and Red Seas

Sabehi, G., Massana, R., Bielawski, J. P., Rosenberg, M., DeLong, E. F., & Béjà, O. (2003) · Environmental Microbiology · doi:10.1046/j.1462-2920.2003.00493.x · Cited by 116

Unique glycine‐activated riboswitch linked to glycine–serine auxotrophy in SAR11

Tripp, H. J., Schwalbach, M. S., Meyer, M. M., Kitner, J. B., Breaker, R. R., & Giovannoni, S. J. (2008) · Environmental Microbiology · doi:10.1111/j.1462-2920.2008.01758.x · Cited by 110

A new vision of ocean biogeochemistry after a decade of the Joint Global Ocean Flux Study (JGOFS).

Anderson, R., Archer, D. E., Bathmann, U. V., Boyd, P. W., Buesseler, K. O., Burkill, P. H., Bychkov, A., Carlson, C., Chen, C. A., Doney, S. C., et al. (2001) · PubMed · Cited by 88

Quantitative assessment of protein function prediction from metagenomics shotgun sequences

Harrington, E. D., Singh, A. H., Doerks, T., Letunić, I., von Mering, C., Jensen, L. J., Raes, J., & Bork, P. (2007) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0702636104 · Cited by 84

From Genes to Ecosystems: The Ocean's New Frontier

Doney, S. C., Abbott, M. R., Cullen, J. J., Karl, D. M., & Rothstein, L. M. (2004) · Frontiers in Ecology and the Environment · doi:10.2307/3868334 · Cited by 81

Finding novel genes in bacterial communities isolated from the environment

Krause, L., Diaz, N. N., Bartels, D., Edwards, R. A., Pühler, A., Rohwer, F. L., Meyer, F., & Stoye, J. (2006) · Bioinformatics · doi:10.1093/bioinformatics/btl247 · Cited by 76

Polyphyletic photosynthetic reaction centre genes in oligotrophic marine Gammaproteobacteria

Cho, J., Stapels, M. D., Morris, R. M., Vergin, K. L., Schwalbach, M. S., Givan, S. A., Barofsky, D. F., & Giovannoni, S. J. (2007) · Environmental Microbiology · doi:10.1111/j.1462-2920.2007.01264.x · Cited by 72

Bacterioplankton assemblages transforming dissolved organic compounds in coastal seawater

Mou, X., Hodson, R. E., & Moran, M. A. (2007) · Environmental Microbiology · doi:10.1111/j.1462-2920.2007.01318.x · Cited by 68

Annotation of metagenome short reads using proxygenes

Dalevi, D., Ivanova, N., Mavromatis, K., Hooper, S. D., Szeto, E., Hugenholtz, P., Kyrpides, N. C., & Markowitz, V. M. (2008) · Bioinformatics · doi:10.1093/bioinformatics/btn276 · Cited by 44

Toward a Standards-Compliant Genomic and Metagenomic Publication Record

Garrity, G. M., Field, D., Kyrpides, N. C., Hirschman, L., Sansone, S., Angiuoli, S. V., Cole, J. R., Glöckner, F. O., Kolker, E., Kowalchuk, G. A., et al. (2008) · OMICS A Journal of Integrative Biology · doi:10.1089/omi.2008.a2b2 · Cited by 34

Towards microbial systems science: integrating microbial perspective, from genomes to biomes

DeLong, E. F. (2002) · Environmental Microbiology · doi:10.1046/j.1462-2920.2002.t01-12-00257.x · Cited by 13

Genomics and the future of conservation genetics

Allendorf, F. W., Hohenlohe, P. A., & Luikart, G. (2010) · Nature Reviews Genetics · doi:10.1038/nrg2844 · Cited by 1,641

Microbial Surface Colonization and Biofilm Development in Marine Environments

Dang, H., & Lovell, C. R. (2015) · Microbiology and Molecular Biology Reviews · doi:10.1128/mmbr.00037-15 · Cited by 1,310

Untangling the Genetic Basis of Fibrolytic Specialization by Lachnospiraceae and Ruminococcaceae in Diverse Gut Communities

Biddle, A. S., Stewart, L. C., Blanchard, J. L., & Leschine, S. B. (2013) · Diversity · doi:10.3390/d5030627 · Cited by 1,071

Microbial Nitrogen Cycling Processes in Oxygen Minimum Zones

Lam, P., & Kuypers, M. M. M. (2010) · Annual Review of Marine Science · doi:10.1146/annurev-marine-120709-142814 · Cited by 691

Marine bacterial, archaeal and protistan association networks reveal ecological linkages

Steele, J. A., Countway, P. D., Xia, L., Vigil, P. D., Beman, J. M., Kim, D. Y., Chow, C.-E. T., Sachdeva, R., Jones, A. C., Schwalbach, M. S., et al. (2011) · The ISME Journal · doi:10.1038/ismej.2011.24 · Cited by 636

The interactive microbial ocean

Brussaard, C. P. D., Bidle, K. D., Pedrós‐Alió, C., & Legrand, C. (2016) · Nature Microbiology · doi:10.1038/nmicrobiol.2016.255 · Cited by 18

Modeling and Prediction of Marine Microbial Populations in the Genomic Era

Hood, R. R., Laws, E. A., Follows, M. J., & Siegel, D. A. (2007) · Oceanography · doi:10.5670/oceanog.2007.61 · Cited by 16

Genomic perspectives in microbial oceanography

DeLong, E. F., & Karl, D. M. (2005) · Nature · doi:10.1038/nature04157 · Cited by 269

Deciphering Metabolic Currencies That Support Marine Microbial Networks

Durham, B. P. (2021) · mSystems · doi:10.1128/msystems.00763-21 · Cited by 16

Swimming with microbes: an individual-based modelling approach to ocean microbial ecology across scales

Christensen, A. K. (2021) · doi:10.25560/96428