Janet Jansson's Publications

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Publications (Last 5 years)

  1. Mackelprang, R., M.P. Waldrop, K.M. DeAngelis, K.L. Chavarria, S.J. Blazewicz, E.M. Rubin and J.K. Jansson. Metagenomic analysis of microbial community response to thaw (in press, Nature).
  2. Jansson, J.K. 2011. Towards "Tera-Terra": Terabase sequencing of terrestrial metagenomes. Microbe. 6:309-315.
  3. Jansson, J.K., J.D. Neufeld, M.A. Moran and J.A. Gilbert. 2011. Omics for understanding microbial functional dynamics. Environmental Microbiology (advance online: DOI: 10.1111/j.1462-2920.2011.02518x).
  4. Lu, Z., Y. Deng, J. D. Van Nostrand, Z. He, J. Voordeckers, A. Zhou, Y-J. Lee, O. Mason, E. Dubinsky, K. Chavarria, L. Tom, J. Fortney, R. Lamendella, J.K. Jansson, P.D’haeselleer, T.C. Hazen and J. Zhou. 2011. Microbial gene functions enriched in the Deepwater Horizon deep-sea oil plume. The ISME Journal (advance online: doi:10.1038/ismej.2011.91)
  5. Yilmaz, P., R. Kottmann, D. Field, R. Knight, J.R. Cole, L. Amaral-Zettler, J.A. Gilbert, I. Karsch-Mizrachi, A. Johnston, G. Cochrane, R. Vaughan, C. Hunter, J. Park, N. Morrison, P. Rocca-Serra, P. Ster, M. Arumugam, M. Bailey, L. Baumgartner, B.W. Birren, M.J. Blaser, V. Bonazzi, T. Booth, P. Bork, F.D. Bushman, P. L. Buttigieg, P.S.G. Chain, E. Charlson, E.K Costello, H. Huot-Creasy, P. Dawyndt, T. DeSantis, N. Fierer, J.A. Fuhrman, F.E. Gallery, D. Gevers, R.A. Gibbs, I.San Gil, A. Gonzalez, J.I. Gordon, R. Guralhnick, W. Hankeln, S. Highlander, P. Hugenholtz, J. Jansson, et al., 2011. Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications. Nature Biotechnology. 29:415-420.
  6. Jansson, J.K. and J.K. Fredrickson. 2010. Stewards of a changing planet: commentaries from ISME13 plenary lecturers. The ISME Journal. 4:1079-1080.
  7. Hazen, T.C., E.A. Dubinsky, T.Z. DeSantis, G.L.Andersen, Y.M. Piceno, N. Singh, J.K. Jansson, et al. (2010) Deep-sea oil plume enriches indigenous oil-degrading bacteria. Science. 330:204-208.
  8. Chourey, K., J.K. Jansson, N. VerBerkmoes, M. Shah, K. Chavarria, L. Tom, E. Brodie and R. Hettich. (2010) A direct cellular lysis/protein extraction protocol for soil metaproteomics. Journal of Proteome Research. 9:6615-6622.
  9. Gilbert, J.A., F. Meyer, J. Jansson, J. Gordon, N. Pace, J. Tiedje, R. Ley, N. Fierer, D. Field, N. Krypides, F.-O. Glockner, H.P. Klenk, K.E. 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. Standards in Genomic Science. 3:3.
  10. Willing, B., J. Dicksved, J. Halfvarson, A. Andersson, M. Lucio, Z. Zeng, G. Jarnerot, C. Tysk, J.K. Jansson, L. Engstrand. 2010. A pyrosequencing study in twins shows that GI microbial profiles vary with inflammatory bowel disease phenotypes. Gastroenterology. 139:1844-1854.
  11. Jakobsson, H., C. Jernberg, A.F. Andersson, M.Sjoland-Karlsson, J.K. Jansson and L. Engstrand (2010) Short-term antibiotic treatment has differing long-term impacts on the human throat and gut microbiome. PLoS One (in press)
  12. Wessen, E., K. Nyberg, J.K. Jansson and S. Hallin. 2010. Responses of bacterial and archaeal ammonia oxidizers to soil organic matter under long-term management. Applied Soil Ecology. (in press)
  13. Khoruts, A., J. Dicksved, J.K. Jansson and M. J. Sadowsky (2010) Changes in the composition of the human fecal microbiome following bacteriotherapy for recurrent Clostridium difficile-associated diarrhea.  Journal of Clinical Gastroenterology. (in press)
  14. Hjort, K., M. Bergström, M. Adesina, J.K. Jansson, K. Smalla and S. Sjöling. (2010) Chitinase genes revealed and compared in bacterial isolates, DNA extracts and a metagenomic library from a phytopathogen suppressive soil. FEMS Microbiology Ecology 71:197-207. LBNL-2732E.
  15. Vogel, T.M., P.R. Hirsch, P. Siumonet, J.K. Jansson, J.M. Tiedje, J.D. van Elsas, R. Nalin, L. Philippot and M.J. Bailey. (2009) Advantages of the metagenomic approach for soil exploration: reply from Vogel et al. Nature Reviews Microbiology. Published on line.
  16. Jansson, J. K., 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. LBNL-2153. PLoS One. 4 (7):1-10 (e6386). LBNL-2153
  17. Zhigang, Wu, B. Willing, J. Bjerketorp, J.K. Jansson and K. Hjort. 2009. Soft inertial microfluidics for high throughput separation of bacteria from human blood cells. Lab on a Chip. 9:1193-1199. LBNL-1539E.
  18. Vogel, T.M., P. Simonet, J.K. Jansson, P.R. Hirsch, J.M. Tiedje, J.D. van Elsas, M. J. Bailey, R. Nalin L. Philippot (2009). TerraGenome: a consortium for the sequencing of a soil metagenome. Nature Reviews Microbiology.7:1
  19. Unell, M., P. E. Abraham, M. Shah, B. Zhang, C. Ruckert, N.C. VerBerkmoes and J. Jansson. 2009. Impact of phenolic substrate and growth temperature on the Arthrobacter proteome. J.Proteome Res. 8:1953-1964. LBNL-1565E.
  20. Willing, B., J. Halfvarson, J. Dicksved, M. Rosenquist, G. Jarnerot, L. Engstrand, C. Tysk and J.K. Jansson. 2009. Twin studies reveal specific imbalances in the mucosa-associated microbiota of patients with ileal Crohn’s disease. Inflammatory Bowel Diseases. 15:653-660. LBNL-1222E.
  21. Dicksved, J., M. Lindberg, M. Rosenquist, H. Enroth, J.K. Jansson and L. Engstrand. 2009. Molecular Characterization of the Stomach Microbiota in Patients With Gastric Cancer and Controls. Journal of Medical Microbiology. 58:509-516. LBNL-1632E
  22. VerBerkmoes, N.C., A.L. Russell, M. Shah, A. Godzik, M. Rosenquist, J. Halfvarson, M.G. Lefsrud, J. Apajalahti, C. Tysk, R.L.Hettich and J.K. Jansson. 2009. Shotgun metaprotomics of the human distal gut microbiota. The ISME Journal. 3:179-189. LBNL-1134E.
  23. Jäderlund, L. M. Hellman, I. Sundh, M. Bailey and J.K. Jansson. 2008. Use of a novel non-antibiotic triple marker gene cassette to monitor high survival of Pseudomonas fluorescens SBW25 on winter wheat in the field. FEMS Microbiology Ecology.63:156-168.
  24. Unell, M., K. Nordin, C. Jernberg, J. Stenström and J.K. Jansson. 2008. Degradation of mixtures of phenolic compounds by Arthrobacter chlorophenolicus A6. Biodegradation 19:495-505.
  25. Bjerketorp, J. A.N.T. Chiang, K. Hjort, M. Rosenquist, W-T. Liu and J.K. Jansson. 2008. Rapid lab-on-a-chip profiling of human gut bacteria. Journal of Microbiological Methods. 72:82-90.
  26. Jäderlund, L., V. Arthurson, U. Granhall and J.K. Jansson. 2008. Specific interactions between arbuscular mycorrhizal fungi and plant growth/promoting bacteria as revealed by different combinations. FEMS Microbiology Letters. 287:174-180. LBNL-920E.
  27. Edlund, A., F. Hårdeman, J.K. Jansson and S. Sjöling. 2008. Active bacterial community structure along vertical redox gradients in Baltic Sea sediment. Environmental Microbiology 10:2051-2063. LBNL-711E.
  28. Edlund, A. and J.K. Jansson. 2008. Use of bromodeoxyuridine immunocapture to identify psychrotolerant phenanthrene-degrading bacteria in phananthrene-enriched polluted Baltic Sea sediments. FEMS Microbiology Ecology. 65:513-525. LBNL-1538E
  29. Van Elsas, J.D., J. Jansson, S. Sjoling, M. Bailey, R. Nalin, T. Vogel, R. Costa and L.V. Overbeek. 2008.The soil metagenome–a recalcitrant, yet explorable goldmine for gene hunters. Trends in Biotech.26:591-691.
  30. Dicksved, J., J. Halfvarson, M. Rosenquist, G. Järnerot, C. Tysk, J. Apajalahti, L. Engstrand and J.K. Jansson. 2008. Molecular analysis of the gut microbiota of identical twins with Crohn’s disease.The ISME Journal .2:716-727. LBNL-197E.
  31. Jernberg, C., S. Löfmark, C. Edlund and J.K. Jansson. 2007. Long-term ecological impacts of antibiotic administration on the human intestinal microbiota. The ISME Journal.1:56-66.
  32. Steger, K., Å.M. Sjögren, Å. Jarvis, J.K. Jansson and I. Sundh. 2007. Development of compost maturity and Actinobacteria populations during full-scale composting of organic household waste. Journal of Applied Microbiology.103:487-498.
  33. Hjort, K., A. Lembke, A. Speksnijder, K. Smalla and J.K. Jansson. 2007. Community structure of actively growing bacterial populations in plant pathogen suppressive soil. Microbial Ecology. 53:399-413.
  34. Dicksved, J., H. Flöistrup, A. Bergström, M. Rosenquist, G. Pershagen, A. Scheynius, S. Roos, J.S. Alm, L. Engstrand, C. Braun-Fahrländer, E. von Mutius and J.K. Jansson. 2007. Molecular fingerprinting of the fecal microbiota of children raised according to different lifestyles. Applied and Environmental Microbiology. 73:2284-2289.
  35. Unell, M., N. Kabelitz, J. Jansson and H. Heipieper. 2007. Adaptation of the psychrotroph Arthrobacter chlorophenolicus A6 to growth temperature and the presence of phenols by changes in the anteiso/iso ration of branched fatty acids. FEMS Microbiology Letters. 266:138-143.
  36. Toljander, J., V. Artursson, L.R. Paul, J.K. Jansson and R.D. Finlay. 2006. Attachment of different soil bacteria to arbuscular mycorrhizal fungal extraradical hyphae is determined by hyphal vitality and fungal species. FEMS Microbiology Letters. 254:34-40.
  37. Lofmark, S., C. Jernberg, J. Jansson and C. Edlund. 2006. Clindamycin induced enrichment and long term persistence of resistant Bacteroides spp. and resistance genes. Journal of Antimicrobial Chemotherapy. 58:1160-1167.
  38. Edlund, A., T. Soule, S. Sjöling and J.K. Jansson. 2006. Microbial community structure in Baltic Sea sediment along a pollution gradient. Environmental Microbiology. 8:223-232.
  39. Edlund, A. and J.K. Jansson. 2006. Changes in active bacterial communities before and after dredging of highly polluted Baltic Sea sediments. Applied and Environmental Microbiology 72:6800-6807.
  40. Bjerketorp, J., S. Håkansson, S. Belkin and J.K. Jansson. 2006. Advances in preservation methods: how to keep microbial biosensors alive and active? Current Opinion in Biotechnology. 17:43-49.
  41. Artursson, V. R. Finlay and J.K. Jansson. 2006. Interactions between arbuscular mycorrhizal fungi and bacteria and their potential for stimulating plant growth. Environmental Microbiology. 8:1-10.
  42. Nordin, K., M. Unell and J.K. Jansson. 2005. A novel 4-chlorophenol degradation gene cluster and degradation route via hydroxyquinol in Arthrobacter chlorophenolicus A6. Applied and Environmental Microbiology 71:6538-6544.
  43. Von der Weid, I., V. Artursson, L. Seldin and J.K. Jansson. 2005. Antifungal and root surface colonization properties of GFP-tagged Paenibacillus bransilensis PB177. World Journal of Microbiology and Biotechnology 12:1589-1595.
  44. Jernberg, C., Å. Sullivan, C. Edlund and J.K. Jansson. 2005. Monitoring antibiotic induced alterations in the human intestinal microflora and detection of probiotic strains by the use of T-RFLP. Applied and Environmental Microbiology. 71:501-506.
  45. Artursson, V., R.D. Finlay and J.K. Jansson. 2005. Combined bromodeoxyuridine immunocapture and terminal restriction fragment length polymorphism analysis highlights differences in the active soil bacterial metagenome due to Glomus mosseae inoculation of plant species.  Environmental Microbiology. 7:1952-1956.

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Books and Book Chapters

  1. Willing, B.P. and J.K. Jansson. 2011. The Gut Microbiota: Ecology and Function. In Sadowsky, M.J. and R.L Whitman (eds) 2011. The Fecal Bacteria. ASM Press. pp.39-66.
  2. Liu, W-T. and J.K. Jansson (eds) 2009. Environmental Molecular Microbiology. Caister Academic Press. (in press)
  3. Prosser, J., J.K. Jansson and W.-T. Liu. 2010. Nucleic-acid-based characterization of community structure and function. In Liu, W-T. and J.K. Jansson (eds) Environmental Molecular Microbiology. Caister Academic Press. pp. 63-86.
  4. Dicksved, J., L. Zhao and J.K. Jansson. 2010. Human Environment. In Liu, W-T. and J.K. Jansson Environmental Molecular Microbiology. Caister Academic Press. pp 167-190.
  5. Van Elsas, J.D., J.K. Jansson and J. Trevors (eds) 2007. Modern Soil Microbiology. CRC Press, Taylor and Francis.
  6. Van Elsas, J.D., V. Torsvik, A. Hartmann, L. Øvreås and J.K. Jansson. 2007. The bacteria and archaea in soil. In. J.D. van Elsas, J.K. Jansson and J. Trevors (eds). Modern Soil Microbiology. CRC Press, Taylor and Francis pp. 83-106.
  7. Bloemberg, G.V., A. Lagopodi, F. J. De Bruijn and J.K. Jansson. 2004. Visualisation of microbes and their interactions in the rhizosphere using auto fluorescent proteins as markers. In A.D.L. Akkermans, J.D. van Elsas and F.J. de Bruijn (eds) Molecular Microbial Ecology Manual, 2nd edition. Kluwer Academic Publishers. Dordrecht, Netherlands, 6.05:1257-1280.
  8. Jansson, J.K. 2002. Antibiotic, Chromogenic, and Luminescent Markers for Bacteria. Manual of Environmental Microbiology. ASM Press, Washington, D.C. pp. 604-614.
  9. Jansson, J.K., Bailey, M. and van Elsas, J.D. (eds) 2000. Tracking Genetically Engineered Microorganisms. Biotechnology Intelligence Unit. Landes Bioscience, EUREKAH.COM. Austin, TX. 164 pages.
  10. Stoltzfus, J.R., J.K. Jansson and F.J. de Bruijn. 2000. Using green fluorescent protein (GFP) as a biomarker or bioreporter for bacteria. In J.K. Jansson, Bailey, M. and van Elsas, J.D. (eds) 2000. Tracking Genetically Modified Microorganisms. Biotechnology Intelligence Unit. R.G. Landes Company, Austin, TX. pp. 101-112.
  11. Jansson, J.K. and F.J. de Bruijn. 1999.  Biomarkers and bioreporters. In Arnold Demain and Julian Davies (eds) Manual of Industrial Microbiology and Biotechnology, 2nd Edition. ASM Press, Washington, D.C., pp.651-665.
  12. Unge, A., R. Tombolini, A. Möller, and J.K. Jansson. 1997. Optimization of GFP as a marker for detection of bacteria in environmental samples. In J.W. Hastings, L.J. Kricka and P.E. Stanley (eds) Bioluminescence and Chemiluminescence: Molecular Reporting with Photons.John Wiley & Sons, Sussex, UK. pp. 391-394.
  13. Jansson, J.K. and T. Leser. 1996. Quantitative PCR of environmental samples. In A.D.L. Akkermans, J.D. van Elsas and F.J. de Bruijn (eds) Molecular Microbial Ecology Manual. Kluwer Academic Publishers. Dordrecht, Netherlands, ch. 2.7.4.

Refereed Conference Proceedings

  1. Westerberg, K., C. Jernberg, A. M. Elväng and J.K. Jansson. 2001. Arthrobacter chlorophenolicus A6: the complete story of a 4-chlorophenol degrading bacterium. Proceedings of the Sixth International In Situ and On-Site Bioremediation Symposium. San Diego, CA, Battelle Press.
  2. Tiedje, J.M., J.K. Janssoon, W.W. Mohn, W.E. Holbena nd J.F. Quensen, III. 1991.. Biotechnology for biodegradation: Reductive dechloorination and nucleic acid probe tracking methods. In L. Gololeva (ed) Microbial Biodegradation of Xenobiotics. UNEP Training Course. United Nations Environmetal Programme, USSR Commission for UNEP, USSR Academy of Sciences. Pushchino, Moscow, USSR, pp. 84-106.

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Invited Speaker Presentations

  1. Permafrost metagenomics. 3rd Annual Argonne Soil Metagenomics Workshop. October 5-7, 2011. Chicago IL.
  2. Metagenome sequencing insights – From soil to oil. First International Earth Microbiome Program Symposium. Schenzhen, China. June 12-16, 2011.
  3. Multi-omics investigations of the role of the gut microbiome in Crohn’s disease. Iowa State University seminar series. Ames, Iowa. April 21, 2011.
  4. The data bonanza in the age of soil metagenomics and metaproteomics. Keystone Symposium on Microbial Communities as Drivers of Ecosystem Complexity, March 25-30, 2011. Beaver Run Resort, Breckenridge Colorado.
  5. Overcoming hurdles towards applications of metagenomics and metaproteomics in soil. International Symposium on Soil Metagenomics. Braunschweig, Germany. December 8-10, 2010.
  6. Illumina-tion of soil microbial community responses to climate change using metagenomics. Microbial Ecosystems Lecture series. University of Vienna, Austria. December 6-8, 2010.
  7. Soil Proteomics. Soil Science Society of America. Long Beach, CA. October 31-November 3, 2010.
  8. Metaproteomics and metabolomics reveal potential biomarkers of Crohn’s diseases in the human gut microbiome. ASM Beneficial Microbes. Miami, FL. October 25-29, 2010.
  9. Exploration of the human microbiome using “omics” approaches. MPGI Annual Fall Symposia. University of Minnesota. Sept. 1-3, 2010.
  10. Permafrost soil metagenomics reveals microbial community dynamics and carbon cycling processes during thaw.13th International Symposium on Microbial Ecology (ISME13). Seattle, WA. August 22-25, 2010.
  11. Soil metagenome responses to climate change. 110th General Meeting of the American Society of Microbiology. San Diego, CA. May 23-27, 2010.
  12. The human gut microbiota in health and disease. 110th General Meeting of the American Society of Microbiology. San Diego, CA. May 23-27, 2010.
  13. Studies of identical twins with inflammatory bowel diseases. International Human Metagenome Conference. Shenzhen, China, March 1-3, 2010
  14. Use of omics to explore the human microbiome. MikroBioKosmos. Athens, Greece. Dec. 11-13, 2009.
  15. Ongoing soil metagenomics projects. Argonne Soil Metagenomics Workshop. Argonne, Illinois. October 25-27, 2009.
  16. Studying the human gut microbiome (in health and disease) using a variety of omics approaches. ProkaGENOMICS 2009. 4th European Conference on Prokaryotic Genomics. Gottingen, Germany. 4-7 October, 2009.

Invention Disclosure

Metabolite signatures of Crohn’s disease

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