Lab Fellow, Biologist
Biological Sciences
Lab Fellow, Biologist
Biological Sciences

Janet Jansson is Chief Scientist for Biology in the Biological Sciences Division and a Laboratory Fellow at the Pacific Northwest National Laboratory (PNNL). Jansson has more than 30 years of experience in microbial ecology. Jansson earned an Soil Microbiology at Colorado State University (1983) and a Microbial Ecology at Michigan State University (1988). Jansson was a researcher in Sweden for 20 years from 1988 - 2007 and was Professor, Chair of Environmental Microbiology, and Vice Dean at the Swedish University of Agricultural Sciences prior to moving back to the United States in 2007. Before coming to PNNL in June 2014, Jansson was a senior staff scientist at Lawrence Berkeley National Laboratory (2007-2014). From 2012-2014, Jansson was an adjunct professor at the University of California, Berkeley and at the University of Copenhagen, Denmark.

Jansson's specific expertise is in the use of molecular approaches (omics) to study complex microbial communities, such as those residing in soil, sediments, and the human gut. Jansson is studying the impact of climate change on microbial communities in prairie and arctic ecosystems, including a focus on the impact of warming on permafrost soil microbiomes and drought on grassland soils. Her research also focuses on the human microbiome, including the impacts of diet, host genetics and inflammatory bowel disease on gut microbial functions.

Currently, Jansson is Co-Principal Investigator for the DOE Office of Science-funded Phenotypic Response of the Soil Microbiome to Environmental Perturbations Science Focus Area. Jansson is a Fellow of the American Academy of Microbiology and the Washington State Academy of Science. In addition, she was recently appointed by the National Academy of Science to the U.S. National Committee on Soil Sciences. She as authored ~200 publications, and is the editor of two books on molecular microbial ecology and a textbook on soil microbiology. She previously served as President of the International Society for Microbiology (ISME) and on numerous advisory panels, including the National Academy of Science Committee on Science Breakthroughs for Food and Agriculture by 2030.


Research Interests

  • Environmental microbiology
  • Molecular microbial ecology
  • Human microbiome

Education and Credentials

  • B.S. Biology & Soil Science (dual), New Mexico State University, 1980
  • M.S. Soil Microbiology, Colorado State University, 1983
  • Ph.D. Microbial Ecology, Michigan State University, 1988
  • Postdoc. Biochemistry, Stockholm University, 1991

Affiliations and Professional Service

  • President: International Society of Microbial Ecology (ISME) (2014-2016); Vice President/President elect (2012-2014)
  • Conference chair: Gordon Research Conference on Applied and Environmental Microbiology (2013; Vice Chair 2011); Co-Chair: ASM Beneficial Host-Microbe conference, San Antonio, TX (2012); Session Chair: "Permafrost Microbiology," AGU conference, San Francisco (2012); Conference chair: 10th Symposium on Bacterial Genetics and Ecology (BAGECO-10), Uppsala, Sweden (2009).
  • Co-Editor-in-Chief, The ISME Journal (2010-2012); Senior Reviews Editor (2013-present).
  • Editor, Mbio (2014-present)
  • Editorial Board member Environmental Microbiology, Current Opinion in Biotechnology, Applied and Environmental Microbiology, FEMS Microbiology Ecology, Microbiome
  • Steering Committee Member: Earth Microbiome Project (; NSF RCN TerraGenome (
  • Advisory Board Member: SciLifeLab (Sweden) > 2014
  • Invited expert to White House Roundtable on the Microbiome, Washington DC (2014)
  • Coordinator of the Swedish Network of Excellence: Uppsala Microbiomics Center (2006-2007)
  • Member of the Swedish Gene Technology Advisory Board (2000-2006)
  • Member of the Swedish Royal Academy of Sciences, National Committee for Biology (2006-2007)
  • Swedish representative for the International Union of Biological Sciences (2006-2007)
  • Coordinator of EU project: MAREP, Marker/reporter genes in Microbial Ecology with 26 partners from 11 different countries (1997-1999)

Awards and Recognitions

  • Laboratory Fellow, Pacific Northwest National Laboratory (2017)
  • Fellow, American Academy of Microbiology (2013)
  • Faculty 1000 (2013)
  • Distinguished Francis C. Clark Lecture, Soil Science Society of America: recognizing achievements in soil biology (2013).
  • Recent Distinguished Lectures/Keynote addresses: AAAS Cutting Edge: The Art and Science of Climate Change (May 1, 2014) Washington, DC; Novartis: Multi-omics of the gut microbiome (Oct. 29, 2014) Emeryville, CA; Argonne Soil Metagenomics Conference: Permafrost soil metagenomics (Oct. 2-3, 2014) Chicago, IL; ASM Beneficial Microbes Symposium: Multi-omics of the gut microbiome (Sept. 28-30, 2014) Boston, MA; Complex Soil Systems Conference: Untangling complexity of soil microbiomes (Sept. 4, 2014) Berkeley, CA; International Society of Microbial Ecology: Omics of the gut microbiome (Aug. 22-28, 2014) Seoul, S. Korea; Monsanto Fellows Symposium (Jan. 7-8, 2014) Saint Louis, MO; Keynote debate, Danish Society of Microbiology (Nov. 19, 2013), Copenhagen, Denmark; Frontiers in Biology Distinguished Lecture Series, Department of Biological Sciences, University of Alberta, (Sept. 12, 2013) Edmonton, Canada; Distinguished lecture, 8th CeBiTec Symposium, (Oct. 28-30, 2013) Bielefeld, Germany. Inspiring Wisdom Distinguished Lecture of State Key Laboratory of Microbial Metabolism (SKMML) (June 3, 2013) Shanghai Jiao Tong University, China; Distinguished Lecture. Microbial Sciences Initiative at Harvard, (April 14, 2012), Harvard, MA; UT/ORNL/KBRIN Bioinformatics Summit: (March 30-April 1, 2012), Louisville, KY; AAAS: Earth Microbiome Project (Feb. 16-20, 2012) Vancouver, BC.

PNNL Publications


  • Espinola F.J., H.M. Dionisi, S. Borglin, C.J. Brislawn, J.K. Jansson, W.P. Mac Cormack, and J. Carroll, et al. 2018. "Metagenomic Analysis of Subtidal Sediments from Polar and Subpolar Coastal Environments Highlights the Relevance of Anaerobic Hydrocarbon Degradation Processes." Microbial Ecology 75, no. 1:123-139. PNNL-SA-127251. doi:10.1007/s00248-017-1028-5
  • Gilbert J.A., M. Blaser, G. Caporaso, J.K. Jansson, S.V. Lynch, and R. Knight. 2018. "Current Understanding of the Human Microbiome." Nature Medicine 24, no. 4:392-400. PNNL-SA-132272. doi:10.1038/nm.4517
  • Nicora C.D., K.E. Burnum-Johnson, E.S. Nakayasu, C.P. Casey, R.A. White, T. Roy Chowdhury, and J.E. Kyle, et al. 2018. "The MPLEx Protocol for Multi-Omic Analyses of Soil Samples." Journal of Visualized Experiments e57343, no. 135. PNNL-SA-129344. doi:10.3791/57343
  • Noguti J., A.A. Chan, B. Bandera, C.J. Brislawn, M. Protic, M.S. Sim, and J.K. Jansson, et al. 2018. "Both the Intratumoral Immune and Microbial Microenvironment are Linked to Recurrence in Human Colon Cancer: Results from a Prospective, Multicenter Nodal Ultrastaging Trial." Oncotarget 9, no. 34:23564 - 23576. PNNL-SA-130502. doi:10.18632/oncotarget.25276
  • Tas N., E. Prestat, S. Wang, Y. Wu, C. Ulrich, T.J. Kneafsey, and S.G. Tringe, et al. 2018. "Landscape Topography Structures the Soil Microbiome in Arctic Polygonal Tundra." Nature Communications 9. PNNL-SA-126595. doi:10.1038/s41467-018-03089-z


  • Bernstein H.C., C.J. Brislawn, R.S. Renslow, K.L. Dana, B.R. Morton, S.R. Lindemann, and H. Song, et al. 2017. "Trade-offs between microbiome diversity and productivity in a stratified microbial mat." The ISME Journal 11, no. 2:405-414. PNNL-SA-120993. doi:10.1038/ismej.2016.133
  • Bernstein H.C., R.S. McClure, V. Thiel, N.C. Sadler, Y. Kim, W.B. Chrisler, and E.A. Hill, et al. 2017. "Indirect interspecies regulation; transcriptional and physiological responses of a cyanobacterium to heterotrophic partnership." mSystems 2, no. 2:Article No. e00181-16. PNNL-SA-113682. doi:10.1128/mSystems.00181-16
  • Halfvarson J., C.J. Brislawn, R. Lamendella, Y. Vazquez-Baeza, W.A. Walters, L.M. Bramer, and M. D'Amato, et al. 2017. "Dynamics of the Human Gut Microbiome in Inflammatory Bowel Disease." Nature Microbiology 2, no. 5:Article No. 17004. PNNL-SA-122629. doi:10.1038/nmicrobiol.2017.4
  • Handley K., Y.M. Piceno, P. Hu, L. Tom, O.U. Mason, G.L. Andersen, and J.K. Jansson, et al. 2017. "Metabolic and Spatio-taxonomic Response of Uncultivated Seafloor Bacteria Following the Deepwater Horizon Oil Spill." The ISME Journal 11, no. 11:2569-2583. PNNL-SA-125408. doi:10.1038/ismej.2017.110
  • Maier T.V., M. Lucio, L.H. Lee, N. VerBerkmoes, C.J. Brislawn, J. Bernhardt, and R. Lamendella, et al. 2017. "Impact of Dietary Resistant Starch on the Human Gut Microbiome, Metaproteome and Metabolome." mBio 8, no. 5:Article No. e01343-17. PNNL-SA-126751. doi:10.1128/mBio.01343-17
  • Men Y., K. Yu, J. Baelum, Y. Gao, J. Tremblay, E. Prestat, and B. Stenuit, et al. 2017. "Metagenomic and Metatranscriptomic Analyses Reveal Structure and Dynamics of a Dechlorinating Community Containing Dehalococcoides Mccartyi and Corrinoid-Providing Microorganisms Under Cobalamin-limited Condition." Applied and Environmental Microbiology83, no. 8:e03508-16. PNNL-SA-126554. doi:10.1128/AEM.03508-16
  • Musumeci M.A., M. Lozada, D.V. Rial, W.P. Mac Cormack, J.K. Jansson, S. Sjoling, and J. Carroll, et al. 2017. "Prospecting Biotechnologically-Relevant Monooxygenases from Cold Sediment Metagenomes: An In Silico Approach." Marine Drugs 15, no. 4:114. PNNL-SA-124674. doi:10.3390/md15040114
  • Snijders A.M., S.A. Langley, Y. Kim, C.J. Brislawn, C. Noecker, E.M. Zink, and S.J. Fansler, et al. 2017. "Influence of early life exposure, host genetics and diet on the mouse gut microbiome and metabolome." Nature Microbiology 2, no. 2:Article No. 16221. PNNL-SA-118063. doi:10.1038/nmicrobiol.2016.221
  • Thompson L.R., J.G. Sanders, D. McDonald, A. Amir, J. Ladau, K.J. Locey, and R.J. Prill, et al. 2017. "A Communal Catalogue Reveals Earth’s Multiscale Microbial Diversity." Nature 551. PNNL-SA-123888. doi:10.1038/nature24621
  • White R.A., A.R. Panyala, K.A. Glass, S.M. Colby, K.R. Glaesemann, G.C. Jansson, and J.K. Jansson. 2017. "MerCat: a versatile k-mer counter and diversity estimator for database-independent property analysis obtained from metagenomic and/or metatranscriptomic sequencing data." PeerJ Preprints 5. PNNL-SA-124860. doi:10.7287/peerj.preprints.2825v1
  • White R.A., J.M. Brown, S.M. Colby, C.C. Overall, J. Lee, J.D. Zucker, and K.R. Glaesemann, et al. 2017. "ATLAS (Automatic Tool for Local Assembly Structures) - A Comprehensive Infrastructure for Assembly, Annotation, and Genomic Binning of Metagenomic and Metaranscripomic Data." PeerJ Preprints 5. PNNL-SA-124317. doi:10.7287/peerj.preprints.2843v1


  • Armstrong A., A. Valverde, J. Ramond, T.P. Makhalanyane, J.K. Jansson, D.W. Hopkins, and T.J. Aspray, et al. 2016. "Temporal Dynamics of Hot Desert Microbial Communities Reveal Structural and Functional Responses to Water Input." Scientific Reports 6. PNNL-SA-123887. doi:10.1038/srep34434
  • Bergeron N., P.T. Williams, R. Lamendella, N. Faghihnia, A. Grube, X. Li, and Z. Wang, et al. 2016. "Diets High in Resistant Starch Increase Plasma Levels of Trimethylamine-N-oxide, a Gut Microbiome Metabolite Associated with CVD Risk." British Journal of Nutrition 116, no. 12:2020-2029. PNNL-SA-124065. doi:10.1017/S0007114516004165
  • Biteen J.S., P.C. Blainey, Z.G. Cardon, M. Chun, G. Church, P.C. Dorrestein, and S.E. Fraser, et al. 2016. "Tools for the Microbiome: Nano and Beyond." ACS Nano 10, no. 1:6-37. PNNL-SA-115178. doi:10.1021/acsnano.5b07826
  • Gilbert J.A., R.A. Quinn, J.W. Debelius, Z.Z. Xu, J. Morton, N. Garg, and J.K. Jansson, et al. 2016. "Microbiome-Wide Association Studies Link Dynamic Microbial Consortia to Disease." Nature 535, no. 7610:94-103. PNNL-SA-118611. doi:10.1038/nature18850
  • Guibert L.M., C.L. Loviso, S. Borglin, J.K. Jansson, H.M. Dionisi, and M. Lozada. 2016. "Diverse Bacterial Groups Contribute to the Alkane Degradation Potential of Chronically Polluted Subantarctic Coastal Sediments." Microbial Ecology 71, no. 1:100-112. PNNL-SA-115877. doi:10.1007/s00248-015-0698-0
  • Jansson J.K., and E.S. Baker. 2016. "A multi-omic future for microbiome studies." Nature Microbiology 1, no. 5:Article No. 16049. PNNL-SA-116189. doi:10.1038/NMICROBIOL.2016.49
  • Lopez J.L., M. Golemba, E. Hernandez, M. Lozada, H.M. Dionisi, J.K. Jansson, and J. Carroll, et al. 2016. "Microbial and Viral-like Rhodopsins Present in Coastal Marine Sediments from Four Polar and Subpolar Regions." FEMS Microbiology Ecology 93, no. 1:Article No. fiw216. PNNL-SA-124023. doi:10.1093/femsec/fiw216
  • Mackelprang R., S. Saleska, C.S. Jacobsen, J.K. Jansson, and N. Tas. 2016. "PERMAFROST META-OMICS AND CLIMATE CHANGE." Annual Review of Earth and Planetary Sciences 44. PNNL-SA-118187. doi:10.1146/annurev-earth-060614-105126
  • Matos M.N., M. Lozada, L.E. Anselmino, M.A. Musumeci, B. Henrissat, B. Henrissat, and J.K. Jansson, et al. 2016. "Metagenomics Unveils the Attributes of the Alginolytic Guilds of Sediments from Four Distant Cold Coastal Environments." Environmental Microbiology 18, no. 12:4471-4484. PNNL-SA-118948. doi:10.1111/1462-2920.13433
  • Nakamura Y.K., C. Metea, L. Karstens, M. Asquith, H. Gruner, C. Moscibrocki, and I. Lee, et al. 2016. "Gut Microbial Alterations Associated with Protection from Autoimmune Uveitis." Investigative Ophthalmology & Visual Science 57, no. 8:3747-3758. PNNL-SA-117611. doi:10.1167/iovs.16-19733
  • Nesme J., W. Achouak, S.N. Agathos, M. Bailey, P. Baldrian, D. Brunel, and A. Frostegard, et al. 2016. "Back to the Future of Soil Metagenomics." Frontiers in Microbiology 7. PNNL-SA-116061. doi:10.3389/fmicb.2016.00073
  • Noecker C., A. Eng, S. Srinivasan, C.M. Theriot, V.B. Young, J.K. Jansson, and D.N. Fredricks, et al. 2016. "Metabolic model-based integration of microbiome taxonomic and metabolomic profiles elucidates mechanistic links between ecological and metabolic variation." mSystems 1, no. 1. PNNL-SA-114485. doi:10.1128/mSystems.00013-15
  • White R.A., E.M. Bottos, T. Roy Chowdhury, J.D. Zucker, C.J. Brislawn, C.D. Nicora, and S.J. Fansler, et al. 2016. "Moleculo long-read sequencing facilitates assembly and resolves functionally active genomic bins from complex soil metagenomes." mSystems 1, no. 3. PNNL-SA-117268. doi:10.1128/mSystems.00045-16
  • White R.A., S.J. Callister, R.J. Moore, E.M. Baker, and J.K. Jansson. 2016. "The Past, Present and Future of Microbiome Analyses." Nature Protocols 11, no. 11:2049-2053. PNNL-SA-119986. doi:10.1038/nprot.2016.148


  • Alivisatos A., M. Blaser, E.L. Brodie, M. Chun, J.L. Dangl, T.J. Donohue, and P.C. Dorrestein, et al. 2015. "A unified initiative to harness Earth’s microbiomes." Science 350, no. 6260:507-508. PNNL-SA-113705. doi:10.1126/science.aac8480
  • Carillo-Araujo M., N. Tas, R.J. Alcntara-Hernndez, O. Gaona, J.E. Schondube, R.A. Medellin, and J.K. Jansson, et al. 2015. "Phyllostomid bat microbiome composition is associated to host phylogeny and feeding strategies." Frontiers in Microbiology 6. PNNL-SA-111189. doi:10.3389/fmicb.2015.00447
  • Dicksved J J., J.K. Jansson, and J.E. Lindberg. 2015. "Fecal microbiome of growing pigs fed a cereal based diet including chicory (Cichorium intybus L.) or ribwort (Plantago lanceolata L.) forage." Journal of Animal Science and Biotechnology 6. PNNL-SA-118300. doi:10.1186/s40104-015-0054-8
  • Hultman J., M.P. Waldrop, R. Mackelprang, M. David, J. McFarland, S.J. Blazewicz, and J.W. Harden, et al. 2015. "Multi-omics of Permafrost, Active Layer and Thermokarst Bog Soil Microbiomes." Nature 521, no. 7551:208-212. PNNL-SA-107737. doi:10.1038/nature14238
  • Keravec M., J. Mounier, E. Prestat, S. Vallet, J.K. Jansson, G. Bergaud, and S. Rosec, et al. 2015. "Insights into the respiratory tract microbiota of patients with cystic fibrosis during early Pseudomonas aeruginosa colonization." SpringerPlus 4. PNNL-SA-112455. doi:10.1186/s40064-015-1207-0
  • Koeberl M., R.A. White, S. Erschen, N. Spanberger, T.F. El-Arabi, J.K. Jansson, and G. Berg. 2015. "Complete genome sequence of Bacillus amyloliquefaciens strain Co1-6, a plant growth-promoting rhizobacterium of Calendula officinalis." Genome Announcements 3, no. 4:Article No. e00862-15. PNNL-SA-111206. doi:10.1128/genomeA.00862-15
  • Koeberl M., R.A. White, S. Erschen, T.F. El-Arabi, J.K. Jansson, and G. Berg. 2015. "Draft genome sequence of Paenbacillus polymyxa strain Mc5Re-14, an antagonistic root endophyte of Matricaria chamomilla." Genome Announcements 3, no. 4:Article No. e00861-15. PNNL-SA-111003. doi:10.1128/genomeA.00861-15
  • Koeberl M., R.A. White, S. Erschen, T.F. El-Arabi, J.K. Jansson, and G. Berg. 2015. "Draft genome sequence of Streptomyces sp. strain Wb2n-11, a desert isolate with broad-spectrum antagonism against soilborne phytopathogens." Genome Announcements 3, no. 4:e00860-15. PNNL-SA-110382. doi:10.1128/genomeA.00860-15
  • Lipson D.A., T.K. Raab, M. Parker, S.T. Kelley, C.J. Brislawn, and J.K. Jansson. 2015. "Changes in microbial communities along redox gradients in polygonized Arctic wet tundra soils." Environmental Microbiology Reports 7, no. 4:649-657. PNNL-SA-113868. doi:10.1111/1758-2229.12301
  • Mao J., S.A. Langley, Y. Huang, M. Hang, K.E. Bouchard, S.E. Celniker, and J.B. Brown, et al. 2015. "Identification of genetic factors that modify motor performance and body weight using Collaborative Cross mice." Scientific Reports 5. PNNL-SA-115429. doi:10.1038/srep16247
  • Schostag M., M. Stibal, C.S. Jacobsen, J. Baelum, N. Tas, B. Elberling, and J.K. Jansson, et al. 2015. "Distinct summer and winter bacterial communities in the active layer of Svalbard permafrost revealed by DNA- and RNA-based analyses." Frontiers in Microbiology 6. PNNL-SA-110669. doi:10.3389/fmicb.2015.00399
  • Walters W., E.R. Hyde, D. Berg-Lyons, G. Ackermann, G. Humphrey, A. Parada, and J.A. Gilbert, et al. 2015. "Improved Bacterial 16S rRNA Gene (V4 and V4-5) and Fungal Internal Transcribed Spacer Marker Gene Primers for Microbial Community Surveys." mSystems 1, no. 1:Article No. e00009-15. PNNL-SA-115002. doi:10.1128/mSystems.00009-15

Selected Publications


  • Schostag M, M Stibal, CS Jacobsen, J Baelum, N Tas, B Elberling, JK Jansson, P Semenchuk, and A Prieme. 2015. "Distinct summer and winter bacterial communities in the active layer of Svalbard permafrost revealed by DNA- and RNA-based analyses." Frontiers in Microbiology 6.


  • David MM, S Cecillon, BM Warne, E Prestat, JK Jansson, and TM Vogel. 2014. "Microbial ecology of chlorinated solvent biodegradation." Environmental Microbiology. DOI: 10.1111/1462-2920.12413

  • Gilbert JA, JK Jansson, and R Knight. 2014. "The Earth microbiome project: Successes and aspirations." BMC Biology 12.

  • Howe AC, JK Jansson, SA Malfatti, SG Tringe, JM Tiedje, and CT Brown. 2014. "Tackling soil diversity with the assembly of large, complex metagenomes." Proceedings of the National Academy of Sciences of the United States of America 111(13):4904-4909.

  • Jansson JK and N Tas. 2014. "The microbial ecology of permafrost." Nature Reviews Microbiology 12(6):414-425.

  • Kyrpides NC et al. 2014. "Genomic encyclopedia of bacteria and archaea: Sequencing a myriad of type strains." PLoS Biology 12(8).

  • Lamendella R, S Strutt, S Borglin, R Chakraborty, N Tas, OU Mason, J Hultman, E Prestat, TC Hazen, and JK Jansson. 2014. "Assessments of the Deepwater Horizon oil spill impact on Gulf coast microbial communities." Frontiers in Microbiology 5. DOI: 10.3389/fmicb.2014.00130

  • Mason OU, J Han, T Woyke, and JK Jansson. 2014. "Single-cell genomics reveals features of a Colwellia species that was dominant during the Deepwater Horizon oil spill." Frontiers in Microbiology 5.

  • Mason OU, NM Scott, A Gonzalez, A Robbins-Pianka, J Baelum, J Kimbrel, NJ Bouskill, E Prestat, S Borglin, DC Joyner, JL Fortney, D Jurelevicius, WT Stringfellow, L Alvarez-Cohen, TC Hazen, R Knight, JA Gilbert and JK Jansson. 2014. "Metagenomics reveals sediment microbial community response to Deepwater Horizon oil spill." ISME Journal 8(7): 1464-1475.

  • Myrold DD, LH Zeglin, and JK Jansson. 2014. "The potential of metagenomic approaches for understanding soil microbial processes." Soil Science Society of America Journal 78(1):3-10.

  • Prestat E, MM David, J Hultman, N Tas, R Lamendella, J Dvornik, R Mackelprang, DD Myrold, A Jumpponen, SG Tringe, E Holman, K Mavromatis, and JK Jansson. 2014. "FOAM (Functional Ontology Assignments for Metagenomes):A Hidden Markov Model (HMM) database with environmental focus." Nucleic Acids Research 42(19).

  • Scott NM, M Hess, NJ Bouskill, OU Mason, JK Jansson, and JA Gilbert. 2014. "The microbial nitrogen cycling potential is impacted by polyaromatic hydrocarbon pollution of marine sediments." Frontiers in Microbiology 5.

  • Tas N, E Prestat, JW McFarland, KP Wickland, R Knight, AA Berhe, T Jorgenson, MP Waldrop, and JK Jansson. 2014. "Impact of fire on active layer and permafrost microbial communities and metagenomes in an upland Alaskan boreal forest." ISME Journal 8(9):1904-1919.

  • Woo HL, NR Ballor, TC Hazen, JL Fortney, B Simmons, KW Davenport, L Goodwin, N Ivanova, NC Kyrpides, K Mavromatis, T Woyke, J Jansson, J Kimbrel, and KM DeAngelis. 2014. "Complete genome sequence of the lignin-degrading bacterium Klebsiella sp. strain BRL6-2." Standards in Genomic Sciences 9:19.


  • Curtis T, J-M Daran, JT Pronk, J Frey, JK Jansson, A Robbins-Pianka, R Knight, A Schnurer, BF Smets, EJ Smid, T Abee, M Vicente, and K Zengler. 2013. "Crystal ball-2013." Microbial Biotechnology 6(1):3-16.

  • Jansson JK. 2013. "FORUM:Microbiology the life beneath our feet." Nature 494(7435):40-41.

  • Lozupone CA, J Stombaugh, A Gonzalez, G Ackermann, D Wendel, Y Vazquez-Baeza, JK Jansson, JI Gordon, and R Knight. 2013. "Meta-analyses of studies of the human microbiota." Genome Research 23(10):1704-1714.

  • Nicora CD, BJ Anderson, SJ Callister, AD Norbeck, SO Purvine, JK Jansson, OU Mason, MM David, D Jurelevicius, RD Smith, and MS Lipton. 2013. "Amino acid treatment enhances protein recovery from sediment and soils for metaproteomic studies." Proteomics 13(18-19):2776-2785.


  • Graham DE, MD Wallenstein, TA Vishnivetskaya, MP Waldrop, TJ Phelps, SM Pfiffner, TC Onstott, LG Whyte, EM Rivkina, DA Gilichinsky, DA Elias, R Mackelprang, NC VerBerkmoes, RL Hettich, D Wagner, SD Wullschleger and JK Jansson. 2012. "Microbes in thawing permafrost: The unknown variable in the climate change equation." ISME Journal 6(4): 709-712.

  • Huttenhower C et al. 2012. "Structure, function and diversity of the healthy human microbiome." Nature 486(7402):207-214.

  • Jansson JK, JD Neufeld, MA Moran, and JA Gilbert. 2012. "Omics for understanding microbial functional dynamics." Environmental Microbiology 14(1):1-3.

  • Knight R, J Jansson, D Field, N Fierer, N Desai, JA Fuhrman, P Hugenholtz, D van der Lelie, F Meyer, R Stevens, MJ Bailey, JI Gordon, GA Kowalchuk, and JA Gilbert. 2012. "Unlocking the potential of metagenomics through replicated experimental design." Nature Biotechnology30(6):513-520.

  • Lamendella R, N VerBerkmoes, and JK Jansson. 2012. "'Omics' of the mammalian gut - new insights into function." Current Opinion in Biotechnology 23(3):491-500.

  • Lozupone CA, JI Stombaugh, JI Gordon, JK Jansson, and R Knight. 2012. "Diversity, stability and resilience of the human gut microbiota." Nature 489(7415):220-230.

  • Mason OU, TC Hazen, S Borglin, PSG Chain, EA Dubinsky, JL Fortney, J Han, H-YN Holman, J Hultman, R Lamendella, R Mackelprang, S Malfatti, LM Tom, SG Tringe, T Woyke, J Zhou, EM Rubin, and JK Jansson. 2012. "Metagenome, metatranscriptome and single-cell sequencing reveal microbial response to Deepwater Horizon oil spill." ISME Journal 6(9):1715-1727.

  • Methe BA et al. 2012. "A framework for human microbiome research." Nature 486(7402):215-221.

  • Baelum J, S Borglin, R Chakraborty, JL Fortney, R Lamendella, OU Mason, M Auer, M Zemla, M Bill, ME Conrad, SA Malfatti, SG Tringe, H-Y Holman, TC Hazen and JK Jansson. 2012. "Deep-sea bacteria enriched by oil and dispersant from the Deepwater Horizon spill." Environmental Microbiology 14(9):2405-2416.

  • Erickson AR, BL Cantarel, R Lamendella, Y Darzi, EF Mongodin, C Pan, M Shah, J Halfvarson, C Tysk, B Henrissat, J Raes, NC Verberkmoes, CM Fraser, RL Hettich, and JK Jansson. 2012. "Integrated metagenomics/metaproteomics reveals human host-microbiota signatures of Crohn's disease." PLoS One 7(11).

  • Lu Z, Y Deng, JD Van Nostrand, Z He, J Voordeckers, A Zhou, Y-J Lee, OU Mason, EA Dubinsky, KL Chavarria, LM Tom, JL Fortney, R Lamendella, JK Jansson, P D'Haeseleer, TC Hazen, and J Zhou. 2012. "Microbial gene functions enriched in the Deepwater Horizon deep-sea oil plume." ISME Journal 6(2):451-460.


  • Jansson JK. 2011. "Towards "tera-terra":Terabase sequencing of terrestrial metagenomes." Microbe 6(7):309-315.

  • Mackelprang R, MP Waldrop, KM DeAngelis, MM David, KL Chavarria, SJ Blazewicz, EM Rubin, and JK Jansson. 2011. "Metagenomic analysis of a permafrost microbial community reveals a rapid response to thaw." Nature 480(7377):368-371.

  • Yilmaz P et al. 2011. "Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications." Nature Biotechnology29(5):415-420.

  • Cantarel BL, AR Erickson, NC VerBerkmoes, BK Erickson, PA Carey, C Pan, M Shah, EF Mongodin, JK Jansson, CM Fraser-Liggett, and RL Hettich. 2011. "Strategies for metagenomic-guided whole-community proteomics of complex microbial environments." PLoS One 6(11).


  • Chourey K, J Jansson, N VerBerkmoes, M Shah, KL Chavarria, LM Tom, EL Brodie, and RL Hettich. 2010. "Direct cellular lysis/protein extraction protocol for soil metaproteomics." Journal of Proteome Research 9(12):6615-6622.

  • Gilbert JA, F Meyer, J Jansson, J Gordon, N Pace, J Tiedje, R Ley, N Fierer, D Field, N Kyrpides, FO Glockner, HP Klenk, KE Wommack, E Glass, K Docherty, R Gallery, R Stevens, and R Knight. 2010. "The Earth Microbiome Project: Meeting report of the "1st EMP meeting on sample selection and acquisition" at Argonne National Laboratory October 6(th) 2010." Standards in Genomic Sciences 3(3):249-253.

  • Hazen TC, EA Dubinsky, TZ DeSantis, GL Andersen, YM Piceno, N Singh, JK Jansson, A Probst, SE Borglin, JL Fortney, WT Stringfellow, M Bill, ME Conrad, LM Tom, KL Chavarria, TR Alusi, R Lamendella, DC Joyner, C Spier, J Baelum, M Auer, ML Zemla, R Chakraborty, EL Sonnenthal, P D'Haeseleer, H-YN Holman, S Osman, Z Lu, JD Van Nostrand, Y Deng, J Zhou, and OU Mason. 2010. "Deep-sea oil plume enriches indigenous oil-degrading bacteria." Science 330(6001):204-208.

  • Hettich RL, AL Russell, NC VerBerkmoes, M Shah, C Fraser-Liggett, and JK Jansson. 2010. "Integrating experimental and computational approaches for the proteogenomic characterizations of microbial communities." BMC Bioinformatics 11.

  • Hjort K, M Bergstrom, MF Adesina, JK Jansson, K Smalla, and S Sjoling. 2010. "Chitinase genes revealed and compared in bacterial isolates, DNA extracts and a metagenomic library from a phytopathogen-suppressive soil." FEMS Microbiology Ecology 71(2):197-207.

  • Jakobsson HE, C Jernberg, AF Andersson, M Sjolund-Karlsson, JK Jansson, and L Engstrand. 2010. "Short-term antibiotic treatment has differing long-term impacts on the human throat and gut microbiome." PLoS One 5(3).

  • Jansson JK and JK Fredrickson. 2010. "Stewards of a changing planet:commentaries from ISME13 Plenary Lecturers." ISME Journal 4(9):1079-1080.

  • Prosser JI, JK Jansson, and W-T Liu. 2010. "Nucleic-acid-based characterization of community structure and function." In Environmental Molecular Microbiology, pp 63-86, W.-T. Liu and J. K. Jansson, eds. Norfolk, UK, Caister Academic Press.

  • Wessen E, K Nyberg, JK Jansson, and S Hallin. 2010. "Responses of bacterial and archaeal ammonia oxidizers to soil organic and fertilizer amendments under long-term management." Applied Soil Ecology 45(3):193-200.

  • Jernberg C, S Lofmark, C Edlund, and JK Jansson. 2010. "Long-term impacts of antibiotic exposure on the human intestinal microbiota." Microbiology-SGM 156:3216-3223.

  • Khoruts A, J Dicksved, JK Jansson, and MJ Sadowsky. 2010. "Changes in the composition of the human fecal microbiome after bacteriotherapy for recurrent clostridium difficile-associated diarrhea." Journal of Clinical Gastroenterology 44(5):354-360.

  • Willing BP, J Dicksved, J Halfvarson, AF Andersson, M Lucio, Z Zheng, G Jarnerot, C Tysk, JK Jansson, and L Engstrand. 2010. "A pyrosequencing study in twins shows that gastrointestinal microbial profiles vary with inflammatory bowel disease phenotypes." Gastroenterology139(6):1844-1854.


  • Unell M, PE Abraham, M Shah, B Zhang, C Rueckert, NC VerBerkmoes, and JK Jansson. 2009. "Impact of phenolic substrate and growth temperature on the Arthrobacter chlorophenolicus proteome." Journal of Proteome Research 8(4):1953-1964.

  • Verberkmoes NC, AL Russell, M Shah, A Godzik, M Rosenquist, J Halfvarson, MG Lefsrud, J Apajalahti, C Tysk, RL Hettich, and JK Jansson. 2009. "Shotgun metaproteomics of the human distal gut microbiota." ISME Journal 3(2):179-189.

  • Wu Z, B Willing, J Bjerketorp, JK Jansson, and K Hjort. 2009. "Soft inertial microfluidics for high throughput separation of bacteria from human blood cells." Lab on a Chip 9(9):1193-1199.

  • Dicksved J, M Lindberg, M Rosenquist, H Enroth, JK Jansson, and L Engstrand. 2009. "Molecular characterization of the stomach microbiota in patients with gastric cancer and in controls." Journal of Medical Microbiology 58(4):509-516.

  • Jansson J, B Willing, M Lucio, A Fekete, J Dicksved, J Halfvarson, C Tysk, and P Schmitt-Kopplin. 2009. "Metabolomics reveals metabolic biomarkers of Crohn's disease." PLoS One4(7).

  • Vogel TM, P Simonet, JK Jansson, PR Hirsch, JM Tiedje, JD van Elsas, MJ Bailey, R Nalin, and L Philippot. 2009. "TerraGenome:A consortium for the sequencing of a soil metagenome." Nature Reviews Microbiology 7(4):252-252.

  • Vogel TM, PR Hirsch, P Simonet, JK Jansson, JM Tiedje, JD van Elsas, R Nalin, L Philippot, and MJ Bailey. 2009. "Advantages of the metagenomic approach for soil exploration: Reply from Vogel et al." Nature Reviews Microbiology 7(10)756-757.

  • Willing B, J Halfvarson, J Dicksved, M Rosenquist, G Jarnerot, L Engstrand, C Tysk, and JK Jansson. 2009. "Twin studies reveal specific imbalances in the mucosa-associated microbiota of patients with ileal Crohn's disease." Inflammatory Bowel Diseases 15(5):653-660.


  • Bjerketorp J, ANT Cbiang, K Hjort, M Rosenquist, W-T Liu and JK Jansson. 2008. "Rapid lab-on-a-chip profiling of human gut bacteria." Journal of Microbiological Methods 72(1):82-90.

  • Dicksved J, J Halfvarson, M Rosenquist, G Jarnerot, C Tysk, J Apajalahti, L Engstrand, and JK Jansson. 2008. "Molecular analysis of the gut microbiota of identical twins with Crohn's disease." ISME Journal 2(7):716-727.

  • Edlund A and JK Jansson. 2008. "Use of bromodeoxyuridine immunocapture to identify psychrotolerant phenanthrene-degrading bacteria in phenanthrene-enriched polluted Baltic Sea sediments." FEMS Microbiology Ecology 65(3):513-525.

  • Edlund A, F Hardeman, JK Jansson, and S Sjoling. 2008. "Active bacterial community structure along vertical redox gradients in Baltic Sea sediment." Environmental Microbiology10(8):2051-2063.

  • Jaderlund L, M Hellman, I Sundh, MJ Bailey, and JK Jansson. 2008. "Use of a novel nonantibiotic triple marker gene cassette to monitor high survival of Pseudomonas fluorescensSBW25 on winter wheat in the field." FEMS Microbiology Ecology 63(2):156-168.

  • Jaederlund L, V Arthurson, U Granhall, and JK Jansson. 2008. "Specific interactions between arbuscular mycorrhizal fungi and plant growth-promoting bacteria: As revealed by different combinations." FEMS Microbiology Letters 287(2):174-180.

  • Unell M, K Nordin, C Jernberg, J Stenstrom, and JK Jansson. 2008. "Degradation of mixtures of phenolic compounds by Arthrobacter chlorophenolicus A6." Biodegradation 19(4):495-505.

  • van Elsas JD, R Costal, J Jansson, S Sjoling, M Bailey, R Nalin, TM Vogel, and L van Overbeek. 2008. "The metagenomics of disease-suppressive soils - experiences from the METACONTROL project." Trends in Biotechnology 26(11):591-601.


  • Dicksved J, H Floistrup, A Bergstrom, M Rosenquist, G Pershagen, A Scheynius, S Roos, JS Alm, L Engstrand, C Braun-Fahrlander, E von Mutius, and JK Jansson. 2007. "Molecular fingerprinting of the fecal microbiota of children raised according to different lifestyles." Applied and Environmental Microbiology 73(7):2284-2289.

  • Hjort K, A Lembke, A Speksnijder, K Smalla, and JK Jansson. 2007. "Community structure of actively growing bacterial populations in plant pathogen suppressive soil." Microbial Ecology53(3):399-413.

  • Steger K, AM Sjoegren, A Jarvis, JK Jansson, and I Sundh. 2007. "Development of compost maturity and Actinobacteria populations during full-scale composting of organic household waste." Journal of Applied Microbiology 103(2):487-498.

  • van Elsas JD, JK Jansson, and JT Trevors. 2007. Modern Soil Microbiology. CRC Press, Boca Raton, Florida.

  • Jernberg C, S Lofmark, C Edlund, and JK Jansson. 2007. "Long-term ecological impacts of antibiotic administration on the human intestinal microbiota." ISME Journal 1(1):56-66.

  • Unell M, N Kabelitz, JK Jansson, and HJ Heipieper. 2007. "Adaptation of the psychrotroph Arthrobacter chlorophenolicus A6 to growth temperature and the presence of phenols by changes in the anteiso/iso ratio of branched fatty acids." FEMS Microbiology Letters266(2):138-143.


  • Edlund A and JK Jansson. 2006. "Changes in active bacterial communities before and after dredging of highly polluted Baltic Sea sediments." Applied and Environmental Microbiology72(10):6800-6807.

  • Edlund A, T Soule, S Sjoling, and JK Jansson. 2006. "Microbial community structure in polluted Baltic Sea sediments." Environmental Microbiology 8(2):223-232.

  • Toljander JF, V Artursson, LR Paul, JK Jansson, and RD Finlay. 2006. "Attachment of different soil bacteria to arbuscular mycorrhizal fungal extraradical hyphae is determined by hyphal vitality and fungal species." FEMS Microbiology Letters 254(1):34-40.

  • van Elsas JD, V Torsvik, A Hartmann, L Øvreås, and JK Jansson. 2006. "The bacteria and archaea in soil." In Modern Soil Microbiology, Second Edition, pp 83-106. JD van Elsas, JK Jansson, and JT Trevors, eds. Hoboken, CRC Press, Boca Raton, Florida.

  • Artursson V, RD Finlay and JK Jansson. 2006. "Interactions between arbuscular mycorrhizal fungi and bacteria and their potential for stimulating plant growth." Environmental Microbiology8(1):1-10.

  • Bjerketorp J, S Hakansson, S Belkin, and JK Jansson. 2006. "Advances in preservation methods:Keeping biosensor microorganisms alive and active." Current Opinion in Biotechnology 17(1):43-49.

  • Lofmark S, C Jernberg, JK Jansson, and C Edlund. 2006. "Clindamycin-induced enrichment and long-term persistence of resistant Bacteroides spp. and resistance genes." Journal of Antimicrobial Chemotherapy 58(6):1160-1167.