Karin Holmfeldt

My research focus on the effect of viruses on the bacterioplankton community, how they regulate their diversity, influences their mortality, and impacts the biogeochemical cycles in the ocean by transforming particulate organic material (in the form of microorganisms) to dissolved organic matter and through expression of metabolic genes. This is investigated both through experimental work on virus-host model systems as well as productivity and diversity studies on community level.

Publications

Article in journal (Refereed)

Nilsson, E., Bayfield, O.W., Lundin, D., Antson, A.A., Holmfeldt, K. (2020). Diversity and host interactions among virulent and temperate Baltic Sea Flavobacterium phages. Viruses. 12. 1-21.
Drobysheva, A.V., Panafidina, S.A., Kolesnik, M.V., Klimuk, E.I., Minakhin, L., et al. (2020). Structure and function of virion RNA polymerase of a crAss-like phage. Nature. 1-19.
Sulcius, S., Simoliunas, E., Alzbutas, G., Gasiunas, G., Jauniskis, V., et al. (2019). Genomic Characterization of Cyanophage vB_AphaS-CL131 Infecting Filamentous Diazotrophic Cyanobacterium Aphanizomenon flos-aquae Reveals Novel Insights into Virus-Bacterium Interactions. Applied and Environmental Microbiology. 85.
Nilsson, E., Li, K., Fridlund, J., Sulcius, S., Bunse, C., et al. (2019). Genomic and Seasonal Variations among Aquatic Phages Infecting the Baltic Sea Gammaproteobacterium Rheinheimera sp. Strain BAL341. Applied and Environmental Microbiology. 85. 1-19.
Loderer, C., Holmfeldt, K., Lundin, D. (2019). Non-host class II ribonucleotide reductase in Thermus viruses : sequence adaptation and host interaction. PeerJ. 7. 1-17.
Sulcius, S., Mazur-Marzec, H., Vitonyte, I., Kvederaviciute, K., Kuznecova, J., et al. (2018). Insights into cyanophage-mediated dynamics of nodularin and other non-ribosomal peptides in Nodularia spumigena. Harmful Algae. 78. 69-74.
Lopez-Fernandez, M., Simone, D., Wu, X., Soler, L., Nilsson, E., et al. (2018). Metatranscriptomes Reveal That All Three Domains of Life Are Active but Are Dominated by Bacteria in the Fennoscandian Crystalline Granitic Continental Deep Biosphere. mBio. 9.
Howard-Varona, C., Roux, S., Dore, H., Solonenko, N.E., Holmfeldt, K., et al. (2017). Regulation of infection efficiency in a globally abundant marine Bacteriodetes virus.. The ISME Journal. 11. 284-295.
Šulčius, S., Holmfeldt, K. (2016). Viruses of microorganisms in the Baltic Sea : current state of research and perspectives. Marine Biology Research. 12. 115-124.
Bunse, C., Lundin, D., Karlsson, C.M.G., Akram, N., Vila-Costa, M., et al. (2016). Response of marine bacterioplankton pH homeostasis gene expression to elevated CO₂. Nature Climate Change. 6. 483-487.
Holmfeldt, K., Solonenko, N., Howard-Varona, C., Moreno, M., Malmstrom, R.R., et al. (2016). Large-scale maps of variable infection efficiencies in aquatic Bacteroidetes phage-host model systems. Environmental Microbiology. 18. 3949-3961.
Wu, X., Holmfeldt, K., Hubalek, V., Lundin, D., Åström, M.E., et al. (2016). Microbial metagenomes from three aquifers in the Fennoscandian shield terrestrial deep biosphere reveal metabolic partitioning among populations. The ISME Journal. 10. 1192-1203.
Lara, E., Holmfeldt, K., Solonenko, N., Sà, E.L., Ignacio-Espinoza, J.C., et al. (2015). Life-style and genome structure of marine Pseudoalteromonas siphovirus B8b isolated from the northwestern Mediterranean Sea.. PLoS ONE. 10.
Holmfeldt, K., Howard-Varona, C., Solonenko, N., Sullivan, M.B. (2014). Contrasting genomic patterns and infection strategies of two co-existing Bacteroidetes podovirus genera. Environmental Microbiology. 16. 2501-2513.
Holmfeldt, K., Solonenko, N., Shah, M., Corrier, K., Riemann, L., et al. (2013). Twelve previously unknown phage genera are ubiquitous in global oceans. Proceedings of the National Academy of Sciences of the United States of America. 110. 12798-12803.
Holmfeldt, K., Odić, D., Sullivan, M.B., Middelboe, M., Riemann, L. (2012). Cultivated single-stranded DNA phages that infect marine Bacteroidetes prove difficult to detect with DNA-binding stains.. Applied and Environmental Microbiology. 78. 892-894.
Zweifel, U.L., Hagström, Å., Holmfeldt, K., Thyrhaug, R., Geels, C., et al. (2012). High bacterial 16S rRNA gene diversity above the atmospheric boundary layer. Aerobiologia. 28. 481-498.
Holmfeldt, K., Titelman, J., Riemann, L. (2010). Virus production and lysate recycling in different sub-basins of the northern Baltic Sea.. Microbial Ecology. 60. 572-580.
Holmfeldt, K., Dziallas, C., Titelman, J., Pohlmann, K., Grossart, H., et al. (2009). Diversity and abundance of freshwater Actinobacteria along environmental gradients in the brackish northern Baltic Sea. Environmental Microbiology. 11. 2042-2054.
Riemann, L., Holmfeldt, K., Titelman, J. (2009). Importance of viral lysis and dissolved DNA for bacterioplankton activity in a P-limited estuary, northern Baltic Sea. Microbial Ecology. 57. 286-294.
Middelboe, M., Holmfeldt, K., Riemann, L., Nybroe, O., Haaber, J. (2009). Bacteriophages drive strain diversification in a marine Flavobacterium: implications for phage resistance and physiological properties. Environmental Microbiology. 11. 1971-1982.
Riemann, L., Leitet, C., Pommier, T., Simu, K., Holmfeldt, K., et al. (2008). The Native Bacterioplankton Community in the Central Baltic Sea is Influenced by Freshwater Bacterial Species. Applied and Environmental Microbiology. 74. 503-515.
Titelman, J., Riemann, L., Holmfeldt, K., Nilsen, T. (2008). Copepod feeding stimulates bacterioplankton in a low phosphorus system. Aquatic Biology. 2. 131-141.
Holmfeldt, K., Middelboe, M., Nybroe, O., Riemann, L. (2007). Large variabilities in host strain susceptibility and phage host range govern interactions between lytic marine phages and their Flavobacterium hosts. Applied and Environmental Microbiology. 73. 6730-6739.
Simu, K., Holmfeldt, K., Zweifel, U.L., Hagström, Å. (2005). Culturability and coexistence of colony forming and single cell marine bacterioplankton.. Applied and Environmental Microbiology. 71. 4793-4800.

Manuscript (preprint) (Other academic)

Nilsson, E., Li, K., Holmfeldt, K. Nutrient driven transcriptional changes during phage infection in aquatic bacteria.
Holmfeldt, K., Nilsson, E., Simone, D., Lopez-Fernandez, M., Wu, X., et al. The deep terrestrial virosphere.