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Publications 1981 2019

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Review Article
2019

Developments and opportunities in fungal strain engineering for the production of novel enzymes and enzyme cocktails for plant biomass degradation

Kun, R., Gomes, A. C. S., Hilden, S. K., Salazar Cerezo, S., Mäkelä, M. R. & de Vries, R., 27 Feb 2019, In : Biotechnology Advances.

Research output: Contribution to journalReview ArticleScientificpeer-review

The significance of methionine cycle enzymes in plant virus infections

Mäkinen, K. M. & Swarnalok, D., 6 Apr 2019, In : Current Opinion in Plant Biology. 50, p. 67-75 9 p.

Research output: Contribution to journalReview ArticleScientificpeer-review

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2018

Antibiotic-Resistance Genes in Waste Water

Karkman, A. V., Thuy Do, T., Walsh, F. & Virta, M. P. J., Mar 2018, In : Trends in Microbiology. 26, 3, p. 220-228 9 p.

Research output: Contribution to journalReview ArticleScientificpeer-review

Antimicrobial resistance and the environment: assessment of advances, gaps and recommendations for agriculture, aquaculture and pharmaceutical manufacturing

Topp, E., Larsson, D. G. J., Miller, D. N., Van den Eede, C. & Virta, M. P. J., Mar 2018, In : FEMS Microbiology Ecology. 94, 3, 5 p., 185.

Research output: Contribution to journalReview ArticleScientificpeer-review

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Critical knowledge gaps and research needs related to the environmental dimensions of antibiotic resistance

Larsson, D. G. J., Andremont, A., Bengtsson-Palme, J., Brandt, K. K., Husman, A. M. D. R., Fagerstedt, P., Fick, J., Flach, C-F., Gaze, W. H., Kuroda, M., Kvint, K., Laxminarayan, R., Manaia, C. M., Nielsen, K. M., Plant, L., Ploy, M-C., Segovia, C., Simonet, P., Smalla, K., Snape, J. & 6 othersTopp, E., van Hengel, A. J., Verner-Jeffreys, D. W., Virta, M. P. J., Wellington, E. M. & Wernersson, A-S., Aug 2018, In : Environment International. 117, p. 132-138 7 p.

Research output: Contribution to journalReview ArticleScientificpeer-review

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Innovative approaches to nisin production

Özel, B., Simsek, Ö., Akcelik, M. & Saris, P. E. J., Aug 2018, In : Applied Microbiology and Biotechnology. 102, 15, p. 6299-6307 9 p.

Research output: Contribution to journalReview ArticleScientificpeer-review

2017

Alphavirus polymerase and RNA replication

Pietilä, M., Hellström, K. & Ahola, T., 15 Apr 2017, In : Virus Research. 234, p. 44-57 14 p.

Research output: Contribution to journalReview ArticleScientificpeer-review

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Antibiotic resistance in the wild: an eco-evolutionary perspective

Hiltunen, T., Virta, M. & Laine, A-L., 19 Jan 2017, In : Philosophical Transactions of the Royal Society. Biological Sciences. 372, 1712, 7 p., 20160039.

Research output: Contribution to journalReview ArticleScientificpeer-review

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Open Access
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ICTV Virus Taxonomy Profile: Pleolipoviridae

Bamford, D. H., Pietilä, M. K., Roine, E. S., Atanasova, N. S., Dienstbier, A., Oksanen, H. M. & ICTV Report Consortium, 2017, In : Journal of General Virology. 98, p. 2916–2917

Research output: Contribution to journalReview ArticleScientificpeer-review

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Occurrence and function of enzymes for lignocellulose degradation in commercial Agaricus bisporus cultivation

Kabel, M. A., Jurak, E., Mäkelä, M. R. & de Vries, R. P., Jun 2017, In : Applied Microbiology and Biotechnology. 101, 11, p. 4363-4369 7 p.

Research output: Contribution to journalReview ArticleScientificpeer-review

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Plant RNA Regulatory Network and RNA Granules in Virus Infection

Makinen, K., Lohmus, A. & Pollari, M., 11 Dec 2017, In : Frontiers in plant science. 8, 15 p., 2093.

Research output: Contribution to journalReview ArticleScientificpeer-review

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Ympäristön vaikutus mikrobilääkeresistenssiin

Karkman, A. & Virta, M., 2017, In : Duodecim. 133, 24, p. 2357-2363 7 p.

Research output: Contribution to journalReview ArticleScientificpeer-review

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2016

Diversity of fungal feruloyl esterases: updated phylogenetic classification, properties, and industrial applications

Dilokpimol, A., Mäkelä, M. R., Aguilar-Pontes, M. V., Benoit-Gelber, I., Hilden, S. K. & de Vries, R., 2016, In : Biotechnology for Biofuels. 9, p. 231 18 p., 231.

Research output: Contribution to journalReview ArticleScientificpeer-review

Fungal ligninolytic enzymes and their applications

Mäkelä, M. R., Bredeweg, EL., Magnuson, JK., Baker, SE., de Vries, R. & Hilden, S. K., 2016, In : Microbiology Spectrum. 4, 6, FUNK-0017-2016.

Research output: Contribution to journalReview ArticleScientificpeer-review

Pleolipoviridae, a newly proposed family comprising archaeal pleomorphic viruses with single-stranded or double-stranded DNA genomes

Pietilä, M. K., Roine, E., Sencilo, A., Bamford, D. H. & Oksanen, H. M., Jan 2016, In : Archives of Virology. 161, 1, p. 249-256 8 p.

Research output: Contribution to journalReview ArticleScientificpeer-review

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2015

Aromatic metabolism of filamentous fungi in relation to the presence of aromatic compounds in plant biomass

Mäkelä, M. R., Marinovic, M., Nousiainen, P. A., Liwanag, A. J. M., Benoit, I., Sipilä, J., Hatakka, A. I., de Vries, R. & Hilden, S. K., 2015, In : Advances in Applied Microbiology. 91, p. 63-137 74 p.

Research output: Contribution to journalReview ArticleScientificpeer-review

Comparison of lipid-containing bacterial and archaeal viruses

Atanasova, N., Sencilo, A., Pietilä, M. K., Roine, E., Oksanen, H. & Bamford, D., 2015, In : Advances in Virus Research. 92, p. 1-61

Research output: Contribution to journalReview ArticleScientificpeer-review

Natural Product Biosynthetic Diversity and Comparative Genomics of the Cyanobacteria.

Dittmann, E., Gugger, M., Sivonen, A. K. & Fewer, D. P., 5 Oct 2015, In : Trends in Microbiology. 23, 10, p. 642-652 11 p.

Research output: Contribution to journalReview ArticleScientificpeer-review

Therapeutics and Vaccines Against Chikungunya Virus

Ahola, T., Courderc, T., Ng, L. F. P., Hallengard, D., Powers, A., Lecuit, M., Esteban, M., Merits, A., Roques, P. & Liljestrom, P., 1 Apr 2015, In : Vector Borne and Zoonotic Diseases. 15, 4, p. 250-257 8 p.

Research output: Contribution to journalReview ArticleScientificpeer-review

2014

Archaeal viruses and bacteriophages: comparisons and contrasts

Pietila, M. K., Demina, T. A., Atanasova, N. S., Oksanen, H. M. & Bamford, D. H., Jun 2014, In : Trends in Microbiology. 22, 6, p. 334-344 11 p.

Research output: Contribution to journalReview ArticleScientificpeer-review

Plant biomass degradation by fungi

Mäkelä, M., Donofrio, N. & de Vries, R., 2014, In : Fungal Genetics and Biology. 72, p. 2-9 8 p.

Research output: Contribution to journalReview ArticleScientificpeer-review

Plant-polysaccharide-degrading enzymes from basidiomycetes

Rytioja, J., Hilden, K., Yuzon, J., Hatakka, A., de Vries, R. & Mäkelä, M., 2014, In : Microbiology and Molecular Biology Reviews. 78, 4, p. 573-587 15 p.

Research output: Contribution to journalReview ArticleScientificpeer-review

2013

Cyanobacterial toxins: Biosynthetic routes and evolutionary roots.

Dittmann, E., Fewer, D. P. & Neilan, B., 2013, In : FEMS Microbiology Reviews. 37, 1, p. 23–43 21 p.

Research output: Contribution to journalReview ArticleScientificpeer-review

Ribosomally synthesized and post-translationally modified peptide natural products: overview and recommendations for a universal nomenclature

Arnison, P. G., Bibb, M. J., Bierbaum, G., Bowers, A. A., Bugni, T. S., Bulaj, G., Camarero, J. A., Campopiano, D. J., Challis, G. L., Clardy, J., Cotter, P. D., Craik, D. J., Dawson, M., Dittmann, E., Donadio, S., Dorrestein, P. C., Entian, K-D., Fischbach, M. A., Garavelli, J. S., Goeransson, U. & 45 othersGruber, C. W., Haft, D. H., Hemscheidt, T. K., Hertweck, C., Hill, C., Horswill, A. R., Jaspars, M., Kelly, W. L., Klinman, J. P., Kuipers, O. P., Link, A. J., Liu, W., Marahiel, M. A., Mitchell, D. A., Moll, G. N., Moore, B. S., Mueller, R., Nair, S. K., Nes, I. F., Norris, G. E., Olivera, B. M., Onaka, H., Patchett, M. L., Piel, J., Reaney, M. J. T., Rebuffat, S., Ross, R. P., Sahl, H-G., Schmidt, E. W., Selsted, M. E., Severinov, K., Shen, B., Sivonen, K., Smith, L., Stein, T., Suessmuth, R. D., Tagg, J. R., Tang, G-L., Truman, A. W., Vederas, J. C., Walsh, C. T., Walton, J. D., Wenzel, S. C., Willey, J. M. & van der Donk, W. A., 2013, In : Natural Product Reports. 30, 1, p. 108-160 53 p.

Research output: Contribution to journalReview ArticleScientificpeer-review

2012

Coat proteins, host factors and plant viral replication.

Ivanov, K. I. & Makinen, K., 2012, In : Current opinion in virology. 2, 6, p. 706-712 7 p.

Research output: Contribution to journalReview ArticleScientificpeer-review

Hepatiitti C infektion lääkehoito: kohti viruksen hävittämistä elimistöstä.

Ahola, T. & Kaukinen, P., 2012, In : Duodecim. 128, p. 1911-1917 7 p.

Research output: Contribution to journalReview ArticleScientificpeer-review

2011

Emerging picture of host chaperone and cyclophilin roles in RNA virus replication.

Nagy, P., Wang, R. Y., Pogany, J., Hafren, A. J. & Mäkinen, K., 2011, In : Virology. 411, 2, p. 374-382 9 p.

Research output: Contribution to journalReview ArticleScientificpeer-review

2010

Cyanobactins-ribosomal cyclic peptides produced by cyanobacteria

Sivonen, K., Leikoski, N., Fewer, D. P. & Jokela, J., 2010, In : Applied Microbiology and Biotechnology. 86, 5, p. 1213-1225 13 p.

Research output: Contribution to journalReview ArticleScientificpeer-review

Open Access
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Whole-Cell Bioreporters for the Detection of Bioavailable Metals

Hynninen, A. & Virta, M., 2010, In : Advances in Biochemical Engineering, Biotechnology. 118, p. 31-63 33 p.

Research output: Contribution to journalReview ArticleScientificpeer-review

2008

Plant biotechnology for deeper understanding, wider use and further development of agricultural and horticultural crops

Elomaa, P., Joensuu, J. J., Korpelainen, H., Mäkinen, K., Niklander-Teeri, V., Pirhonen, M., Joensuu, J., Seppänen, M., Teeri, T. & Valkonen, J., 2008, In : Agricultural and Food Science. 17, 3, p. 307-324 18 p.

Research output: Contribution to journalReview ArticleScientificpeer-review

2005

Inhibitors of virus replication: recent developments and prospects

Magden, J., Kääriäinen, L. & Ahola, T., 2005, In : Applied Microbiology and Biotechnology. 66, p. 612-621 10 p.

Research output: Contribution to journalReview ArticleScientificpeer-review

Viral RNA replication in association with cellular membranes

Salonen, A., Ahola, T. & Kääriäinen, L. J., 2005, In : Current Topics in Microbiology and Immunology. 285, p. 139-173 35 p.

Research output: Contribution to journalReview ArticleScientificpeer-review

2003

Potential of the Galega- Rhizobium galegae System for Bioremediation of Oil-contaminated Soil.

Lindström, K., Jussila, M. M., Hintsa, H., Kaksonen, A., Mokelke, L., Mäkeläinen, K., Pitkäjärvi, J. & Suominen, L., 2003, In : Food Technology and Biotechnology. 41, 1, p. 11-16 6 p.

Research output: Contribution to journalReview ArticleScientificpeer-review

1996

Immunity to lantibiotics

Saris, P. E. J., Immonen, T., Reis, M. & Sahl, H. S., 1996, In : Antonie van Leeuwenhoek. 69, 2, p. 151-159 9 p.

Research output: Contribution to journalReview ArticleScientificpeer-review