UMC publications

Wessén, E., Nyberg, K., Jansson, J.K., Hallin, S. (2010). Responses of bacterial and archaeal ammonia oxidizers to soil organic and fertilizer amendments under long-term management. Appl. Soil Ecol., 45: 193-200.

Ihrmark, K., Asmail, N., Ubhayasekera, W., Melin, P., Stenlid, J., and Karlsson, M. (2010). Comparative molecular evolution of Trichoderma chitinases in response to mycoparasitic interactions. Evol. Bioinformatics, 6: 1-26.

Enwall, K., Throbäck, I.N., Stenberg, M., Söderström, M., and Hallin, S. (2010). Soil resources influence spatial patterns of denitrifying communities at scales compatible with land management. Appl. Environ. Microbiol., 76: 2243-2250.

Jones, C. M., and Hallin, S. (2010). Ecological and evolutionary factors underlying global and local assembly of denitrifier communities. ISME J., 4: 633–641.

Philippot, L., Bru., D., Saby, N.P.M., Cuhel, J., Arrouays, D., Simek, M., and Hallin, S. (2009). Spatial patterns of bacterial taxa in nature reflect ecological traits of deep branches of the 16S rRNA bacterial tree. Environ. Microbiol., 11: 3096–3104.

Logares, R., Bråte, J., Heinrich, F., Shalchian-Tabrizi, K., and Bertilsson, S. Infrequent transitions between saline and fresh waters in one of the most abundant microbial lineages (SAR11) (2009). Mol. Biol. Evol. 27: 347-357.

Logares, R., Bråte, J., Bertilsson, S., Clasen, J.L., Shalchian-Tabrizi, K., and Rengefors, K. (2009). Infrequent marine-freshwater transitions in the microbial world. Trends Microbiol. 17: 414-422.

Bize, A., Karlsson, E. A., Ekefjärd, K., Quax, T. E. F., Pina, M., Prevost, M.-C., Forterre, P., Tenaillon, O., Bernander, R., and Prangishvili, D. (2009). A unique virus release mechanism in the Archaea. Proc. Natl. Acad. Sci. USA 106: 11306-11311.

Wu, Z., and Hjort, K. (2009). Surface modification of PDMS by gradient-induced migration of embedded Pluronic. Lab on a Chip 9: 1500-1503.

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

Hallin, S., Jones, C., Schloter, M., and Philippot, L. (2009). Relationship between N-cycling communities and ecosystem functioning in a 50 years old fertilization experiment. ISME J. 3: 597-605.

Enwall, K., and Hallin, S. (2009). Comparison of T-RFLP and DGGA techniques to assess denitrifier community composition. Lett. Appl. Microbiol. 48: 145-148.

Ruiz-Rueda, O., Hallin, S., and Bañeras, L. (2009). Structure and function of denitrifying and nitrifying bacterial communities in relation to plant species in a constructed wetland. FEMS Microbiol. Ecol. 2: 308-319.

Philippot, L., Hallin, S., Börjesson, G., and Baggs, E. M. (2009). Biochemical cycling in the rhizosphere having an impact on global change. Plant Soil. 321: 61-81.

Karlsson, M., and Stenlid, J. (2009). Evolution of family 18 glycoside hydrolases: diversity, domain structures and phylogenetic relationships. J. Mol. Microbiol. Biotechnol. 16: 208-223.

Nygren, C., Eberhardt, U., Karlsson. M., Parrent, J., Lindahl, B., and Taylor, A. (2008) Growth on nitrate and occurrence of nitrate reductase-encoding genes in a phylogenetically diverse range of ectomycorrhizal fungi. New Phytologist 180: 875-889.

Hallin, S., and Bernander, R. (2008). The role of microbes in nature. Sustainability 2: June 2008.

Jones, C. M., Stres, B., Rosenquist, M., and Hallin, S. (2008). Phylogenetic analysis of nitrite, nitric oxide, and nitrous oxide respiratory enzymes reveal a complex evolutionary history for denitrification. Mol. Biol. Evol. 25: 1955-1966.

Hallin, S., and Bernander, R. (2008). Uppsala Microbiomics Center: nya grepp på mikrobernas roll i naturen. Miljöforskning 2: 28-29.

Wu, Z., Hjort, K., Wicher, G., and Fex Svenningsen, Å. (2008). Microfluidic high viability neural cell separation using viscoelastically tuned hydrodynamic spreading. Biomed. Microdev. DOI 10.1007/s105444-008-9174-7.

Karlsson, and M., Stenlid, J. (2008). Comparative evolutionary histories of the fungal chitinase gene family reveal non-random size expansions and contractions due to adaptive natural selection. Evol. Bioinformatics. 4: 47-60.

Bjerketorp, J., Chiang, A. N. T., Hjort, K., Rosenquist, M., Liu, W.-T., and Jansson, J. K. (2008). Rapid lab-on-a-chip profiling of human gut bacteria. J. Microbiol. Meth. 72: 82-90.

Grogan, D. W., Ozarzak, M. A., and Bernander, R. (2008). Variation in gene content among geographically diverse Sulfolobus isolates. Environ. Microbiol. 10: 137-146.

Van Elsas, J. D., Jansson, J. K., and Trevors, J. T. (Eds.) (2007). Modern soil microbiology, 2nd edition. CRC Press, Taylor and Francis group.

Wu, Z., Liu, A. Q., and Hjort, K. (2007). Microfluidic continuous particle/cell separation via electroosmotically tuned hydrodynamic spreading. J. Micromech. Microeng. 17: 1992-1999.

Widenfalk, A., Bertilsson, S., Sundh, I., and Goedkoop, W. (2007). Effects of pesticides on community composition and activity of sediment microbes - responses at various levels of community organization. Environ. Pollut. 152: 576-584.