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Research Output

2006

Cyclic lipopeptide production by plant-associated Pseudomonas spp.: Diversity, activity, biosynthesis, and regulation

Raaijmakers, J. M., De Bruijn, I. & De Kock, M. J. D., 2006, In : Molecular Plant-Microbe Interactions. 19, 7, p. 699-710 12 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

2007

Genome-based discovery, structure prediction and functional analysis of cyclic lipopeptide antibiotics in Pseudomonas species

De Bruijn, I., De Kock, M. J. D., Yang, M., De Waard, P., Van Beek, T. A. & Raaijmakers, J. M., 2007, In : Molecular Microbiology. 63, 2, p. 417-428 12 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

2008

Massetolide A biosynthesis in Pseudomonas fluorescens

De Bruijn, I., De Kock, M. J. D., De Waard, P., Van Beek, T. A. & Raaijmakers, J. M., 2008, In : Journal of Bacteriology. 190, 8, p. 2777-2789 13 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

2009

Diversity and functional analysis of LuxR-type transcriptional regulators of cyclic lipopeptide biosynthesis in Pseudomonas fluorescens

De Bruijn, I. & Raaijmakers, J. M., 2009, In : Applied and Environmental Microbiology. 75, 14, p. 4753-4761 9 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Protozoan-induced regulation of cyclic lipopeptide biosynthesis is an effective predation defense mechanism for Pseudomonas fluorescens

Mazzola, M., De Bruijn, I., Cohen, M. F. & Raaijmakers, J. M., 2009, In : Applied and Environmental Microbiology. 75, 21, p. 6804-6811 8 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Regulation of cyclic lipopeptide biosynthesis in pseudomonas fluorescens by the ClpP Protease

De Bruijn, I. & Raaijmakers, J. M., 2009, In : Journal of Bacteriology. 191, 6, p. 1910-1923 14 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

2010

Natural functions of lipopeptides from Bacillus and Pseudomonas: More than surfactants and antibiotics

Raaijmakers, J. M., de Bruijn, I., Nybroe, O. & Ongena, M., 2010, In : FEMS Microbiology Reviews. 34, 6, p. 1037-1062 26 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

2011

Deciphering the rhizosphere microbiome for disease-suppressive bacteria

Mendes, R., Kruijt, M., De Bruijn, I., Dekkers, E., Van Der Voort, M., Schneider, J. H. M., Piceno, Y. M., DeSantis, T. Z., Andersen, G. L., Bakker, P. A. H. M. & Raaijmakers, J. M., 2011, In : Science. 332, p. 1097-1100 4 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Transcriptional and antagonistic responses of Pseudomonas fluorescens Pf0-1 to phylogenetically different bacterial competitors

Garbeva, P. V., Silby, M. W., Raaijmakers, J. M., Levy, S. & De Boer, W., 2011, In : ISME Journal. 5, 6, p. 973-985

Research output: Contribution to journal/periodicalArticleScientificpeer-review

4 Downloads (Pure)
2013

Going back to the roots: the microbial ecology of the rhizosphere

Philippot, L., Raaijmakers, J. M., Lemanceau, P. & Van der Putten, W. H., 2013, In : Nature Reviews Microbiology. 11, 11, p. 789-799

Research output: Contribution to journal/periodicalArticleScientificpeer-review

8 Downloads (Pure)

The Gac regulon of Pseudomonas fluorescensSBW25

Cheng, X., de Bruijn, I., van der Voort, M., Loper, J. E. & Raaijmakers, J. M., Aug 2013, In : Environmental Microbiology Reports. 5, 4, p. 608-619 12 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

The rhizosphere microbiome: significance of plant beneficial, plant pathogenic, and human pathogenic microorganisms

Mendes, R., Garbeva, P. V. & Raaijmakers, J. M., 2013, In : FEMS Microbiology Reviews. 37, 5, p. 634-663

Research output: Contribution to journal/periodicalArticleScientificpeer-review

8 Downloads (Pure)
2014

Biosynthetic genes and activity spectrum of antifungal polyynes from Collimonas fungivorans Ter331

Fritsche, K., Van den Berg, M., De Boer, W., Van Beek, T. A., Raaijmakers, J. M., Van Veen, J. A. & Leveau, J. H. J., 2014, In : Environmental Microbiology. 16, 5, p. 1334-1345

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access
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339 Downloads (Pure)

Biosynthetic Origin of the Antibiotic Cyclocarbamate Brabantamide A (SB-253514) in Plant-Associated Pseudomonas

Schmidt, Y., van der Voort, M., Crüsemann, M., Piel, J., Josten, M., Sahl, H-G., Miess, H., Raaijmakers, J. M. & Gross, H., 2014, In : ChemBioChem. 15, 2, p. 259-266

Research output: Contribution to journal/periodicalArticleScientificpeer-review

1 Downloads (Pure)

Deciphering microbial landscapes of fish eggs to mitigate emerging diseases

Liu, Y., De Bruijn, I., Jack, A., Drynan, K., van den Berg, A. H., Thoen, E., Sandoval-Sierra, V., Skaar, I., van West, P., Diéguez-Uribeondo, J., van der Voort, M., Mendes, R., Mazzola, M. & Raaijmakers, J. M., 2014, In : ISME Journal. 8, p. 2002-2014

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Discovery of new regulatory genes of lipopeptide biosynthesis in Pseudomonas fluorescens

Song, C., Aundy, K., van de Mortel, J. & Raaijmakers, J. M., 2014, In : FEMS Microbiology Letters. 356, 2, p. 166-175

Research output: Contribution to journal/periodicalArticleScientificpeer-review

4 Downloads (Pure)

Impact of interspecific interactions on antimicrobial activity among soil bacteria

Tyc, O., Van den Berg, M., Gerards, S., Van Veen, J. A., Raaijmakers, J., De Boer, W. & Garbeva, P., 2014, In : Frontiers in Microbiology. 5, 567.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access
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524 Downloads (Pure)

Mangotoxin production of Pseudomonas syringae pv. syringae is regulated by MgoA

Carrión, V. J., van der Voort, M., Arrebola, E., Gurierrez-Barranquero, J. A., de Vicente, A., Raaijmakers, J. M. & Cazorla, F. M., 2014, In : BMC Microbiology. 14, p. 46

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access
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308 Downloads (Pure)

Unravelling the Microbiome of Eggs of the Endangered Sea Turtle Eretmochelys imbricata Identifies Bacteria with Activity against the Emerging Pathogen Fusarium falciforme

Sarmiento-Ramirez, J. M., van der Voort, M., Raaijmakers, J. M. & Dieguez-Uribeondo, J., 2014, In : PLoS One. 9, 4, e95206.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access
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321 Downloads (Pure)
2015

A bioassay to compare the disease suppressive capacity of pasture soils

Dignam, B. E. A., O'Callaghan, M., Condron, L. M., Raaijmakers, J. M., Kowalchuk, G. A. & Wakelin, S. A., 2015, In : New Zealand Plant Protection. 68, p. 151-159 9 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access
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266 Downloads (Pure)

Comparative genomics and metabolic profiling of the genus Lysobacter

De Bruijn, I., Cheng, X., de Jager, V. C. L., Gómez Expósito, R., Watrous, J., Patel, N., Postma, J., Dorrestein, P. C., Kobayashi, D. & Raaijmakers, J. M., 2015, In : BMC Genomics. 16, 991.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access
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262 Downloads (Pure)

Cross-kingdom similarities in microbiome functions

Mendes, R. & Raaijmakers, J. M., 2015, In : ISME Journal. 9, p. 1905-1907

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Diversity and activity of Lysobacter species from disease suppressive soils

Gómez Expósito, R., Postma, J., Raaijmakers, J. M. & de Bruijn, I., 2015, In : Frontiers in Microbiology. 6, 1243, 2015.01243.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access
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251 Downloads (Pure)

Diversity and functions of volatile organic compounds produced by Streptomyces from a disease-suppressive soil

Cordovez, V., Carrion, V., Etalo, D. W., Mumm, R., Zhu, H., Van Wezel, G. P. & Raaijmakers, J. M., 2015, In : Frontiers in Microbiology. 6

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access
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513 Downloads (Pure)

Diversity of aquatic Pseudomonas species and their activity against the fish pathogenic oomycete Saprolegnia

Liu, Y., Rzeszutek, E., van der Voort, M., Wu, C. H., Thoen, E., Skaar, I., Bulone, V., Dorrestein, P. C., Raaijmakers, J. M. & De Bruijn, I., 2015, In : PLoS One. 10, 8, e0136241.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access
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412 Downloads (Pure)

Gac-mediated changes in pyrroloquinoline quinone biosynthesis enhance the antimicrobial activity of Pseudomonas fluorescens SBW25

Cheng, X., van der Voort, M. & Raaijmakers, J. M., 2015, In : Environmental Microbiology Reports. 7, 1, p. 139-147

Research output: Contribution to journal/periodicalArticleScientificpeer-review

4 Downloads (Pure)

Genome mining and metabolic profiling of the rhizosphere bacterium Pseudomonas sp. SH-C52 for antimicrobial compounds

van der Voort, M., Meijer, H., Schmidt, Y., Watrous, J., Dekkers, E., Mendes, R., Dorrestein, P. C., Gross, H. & Raaijmakers, J. M., 2015, In : Frontiers in Microbiology. 6, 693.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access
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230 Downloads (Pure)

Investigations into the biosynthesis, regulation and self-resistance of toxoflavin in Pseudomonas protegens Pf-5.

Philmus, B., Shaffer, B., Kidarsa, T., Yan, Q., Raaijmakers, J., Begley, T. & Loper, J., 2015, In : ChemBioChem. 16, 12, p. 1782-1790

Research output: Contribution to journal/periodicalArticleScientificpeer-review

1 Downloads (Pure)

Lipopeptide biosynthesis in Pseudomonas fluorescens is regulated by the protease complex ClpAP

Song, C., Sundqvist, G., Malm, E., de Bruijn, I., Kumar, A., van de Mortel, J., Bulone, V. & Raaijmakers, J., 2015, In : BMC Microbiology. 15, 29.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access
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310 Downloads (Pure)

Minimum Information about a Biosynthetic Gene cluster: commentary

Medema, M. H., Kottmann, R., Yilmaz, P., Cummings, M., Biggins, J. B., Blin, K., de Bruijn, I., Chooi, Y. H., Claesen, J., Coates, R. C., Cruz-Morales, P., Duddela, S., Dusterhus, S., Edwards, D. J., Fewer, D. P., Garg, N., Geiger, C., Gomez-Escribano, J. P., Greule, A., Hadjithomas, M. & 134 others, Haines, A. S., Helfrich, E. J. N., Hillwig, M. L., Ishida, K., Jones, A. C., Jones, C. S., Jungmann, K., Kegler, C., Kim, H. U., Kotter, P., Krug, D., Masschelein, J., Melnik, A. V., Mantovani, S. M., Monroe, E. A., Moore, M., Moss, N., Nutzmann, H-W., Pan, G., Pati, A., Petras, D., Reen, F. J., Rosconi, F., Rui, Z., Tian, Z., Tobias, N. J., Tsunematsu, Y., Wiemann, P., Wyckoff, E., Yan, X., Yim, G., Yu, F., Xie, Y., Aigle, B., Apel, A. K., Balibar, C. J., Balskus, E. P., Barona-Gomez, F., Bechthold, A., Bode, H. B., Borriss, R., Brady, S. F., Brakhage, A. A., Caffrey, P., Cheng, Y-Q., Clardy, J., Cox, R. J., De Mot, R., Donadio, S., Donia, M. S., van der Donk, W. A., Dorrestein, P. C., Doyle, S., Driessen, A. J. M., Ehling-Schulz, M., Entian, K-D., Fischbach, M. A., Gerwick, L., Gerwick, W. H., Gross, H., Gust, B., Hertweck, C., Hofte, M., Jensen, S. E., Ju, J., Katz, L., Kaysser, L., Klassen, J. L., Keller, N. P., Kormanec, J., Kuipers, O. P., Kuzuyama, T., Kyrpides, N. C., Kwon, H-J., Lautru, S., Lavigne, R., Lee, C. Y., Linquan, B., Liu, X., Liu, W., Luzhetskyy, A., Mahmud, T., Mast, Y., Mendez, C., Metsa-Ketela, M., Micklefield, J., Mitchell, D. A., Moore, B. S., Moreira, L. M., Muller, R., Neilan, B. A., Nett, M., Nielsen, J., O'Gara, F., Oikawa, H., Osbourn, A., Osburne, M. S., Ostash, B., Payne, S. M., Pernodet, J-L., Petricek, M., Piel, J., Ploux, O., Raaijmakers, J. M., Salas, J. A., Schmitt, E. K., Scott, B., Seipke, R. F., Shen, B., Sherman, D. H., Sivonen, K., Smanski, M. J., Sosio, M., Stegmann, E., Sussmuth, R. D., Tahlan, K., Thomas, C. M., Tang, Y., Truman, A. W., Viaud, M., Walton, J. D., Walsh, C. T., Weber, T., van Wezel, G. P., Wilkinson, B., Willey, J. M., Wohlleben, W., Wright, G. D., Ziemert, N., Zhang, C., Zotchev, S. B., Breitling, R., Takano, E. & Glockner, F. O., Sep 2015, In : Nature Chemical Biology. 11, 9, p. 625-631 7 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access
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121 Downloads (Pure)

Molecular and chemical dialogues in bacteria-protozoa interactions

Song, C., Mazzola, M., Cheng, X., Oetjen, J., Alexandrov, T., Dorrestein, P. C., Watrous, J., van der Voort, M. & Raaijmakers, J., 2015, In : Scientific Reports. 5, 12837.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access
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200 Downloads (Pure)

Promotion of plant growth by Pseudomonas fluorescens strain SS101 via novel volatile organic compounds

Park, Y-S., Dutta, S., Ann, M., Raaijmakers, J. M. & Park, K., 2015, In : Biochemical and Biophysical Research Communications. 461, 2, p. 361-365

Research output: Contribution to journal/periodicalArticleScientificpeer-review

3 Downloads (Pure)

Stille krachten doorgrond: the power of the small: oratie

Raaijmakers, J. M., 2015, Universiteit Leiden.

Research output: Book/ReportReportPopularizing

Open Access
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8 Downloads (Pure)

The lipopeptide biosurfactant viscosin enhances dispersal of Pseudomonas fluorescens SBW25 biofilms

Bonnichsen, L., Svenningsen, N. B., Rybtke, M., de Bruijn, I., Raaijmakers, J. M., Tolker-Nielsen, T. & Nybroe, O., 2015, In : Microbiology. 161, 12, p. 2289-2297

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access
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212 Downloads (Pure)

The minimal rhizosphere microbiome

Raaijmakers, J., 2015, Principles of Plant-Microbe Interactions. Lugtenberg, B. (ed.). Springer, p. 411-419 (Microbes for sustainable agriculture).

Research output: Chapter in book/volumeChapterScientific

The novel lipopeptide Poaeamide of the endophyte Pseudomonas poae RE*1-1-14 is involved in pathogen suppression and root colonization

Zachow, C., Jahanshah, G., de Bruijn, I., Song, C., Ianni, F., Pataj, Z., Gerhardt, H., Pianet, I., Lämmerhofer, M., Berg, G., Gross, H. & Raaijmakers, J. M., 2015, In : Molecular Plant-Microbe Interactions. 28, 7, p. 800-810

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access
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144 Downloads (Pure)

The Rsm regulon of plant growth-promoting Pseudomonas fluorescens SS101: role of small RNAs in regulation of lipopeptide biosynthesis

Song, C., van der Voort, M., van de Mortel, J., Hassan, K., Elbourne, L. D. H., Paulsen, I. T., Loper, J. E. & Raaijmakers, J., 2015, In : Microbial Biotechnology. 8, 2, p. 296-310

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access
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167 Downloads (Pure)

Volatile affairs in microbial interactions

Schmidt, R., Cordovez, V., De Boer, W., Raaijmakers, J. & Garbeva, P., 2015, In : ISME Journal. 9, p. 2329-2335

Research output: Contribution to journal/periodicalArticleScientificpeer-review

15 Downloads (Pure)
2016

Challenges and opportunities in harnessing soil disease suppressiveness for sustainable pasture production

Dignam, B. E. A., O'Callaghan, M., Condron, L. M., Raaijmakers, J. M., Kowalchuk, G. A. & Wakelin, S. A., 2016, In : Soil Biology & Biochemistry. 95, April, p. 100-111

Research output: Contribution to journal/periodicalArticleScientificpeer-review

28 Downloads (Pure)

Editorial: Smelly fumes: volatile-mediated communication between bacteria and other organisms

Weisskopf, L., Garbeva, P. V., Ryu, C-M. & Raaijmakers, J. M., 23 Feb 2016, In : Frontiers in Microbiology. 7, 2031.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access
File
167 Downloads (Pure)

Elucidating the diversity of aquatic Microdochium and Trichoderma species and their activity against the fish pathogen Saprolegnia diclina

Liu, Y., Zachow, C., Raaijmakers, J. M. & De Bruijn, I., 2016, In : International Journal of Molecular Sciences. 17, 140.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access
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162 Downloads (Pure)

Fungal invasion of the rhizosphere microbiome

Chapelle, E., Mendes, R., Bakker, P. A. H. M. & Raaijmakers, J., 2016, In : ISME Journal. 10, p. 265-268

Research output: Contribution to journal/periodicalArticleScientificpeer-review

7 Downloads (Pure)

Impact of plant domestication on rhizosphere microbiome assembly and functions

Perez Jaramillo, J. E., Mendes, R. & Raaijmakers, J., 2016, In : Plant Molecular Biology. 90, 6, p. 635-644

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access
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288 Downloads (Pure)

Impact of soil heat on reassembly of bacterial communities in the rhizosphere microbiome and plant disease suppression

van der Voort, M., Kempenaar, M., van Driel, M., Raaijmakers, J. M. & Mendes, R., 2016, In : Ecology Letters. 19, 4, p. 375-382

Research output: Contribution to journal/periodicalArticleScientificpeer-review

15 Downloads (Pure)

Indexing the Pseudomonas specialized metabolome enabled the discovery of poaeamide B and the bananamides

Nguyen, D., Melnik, A. V., Koyama, N., Lu, X., Schorn, M., Fang, J., Aguinaldo, K., Lincecum Jr., T., Ghequire, M., Carrion, V. J., Cheng, T., Malone, J., Mauchline, T., Sanchez, L., Marm Kilpatrick, A., Raaijmakers, J. M., De Mot, R., Moore, B., Medema, M. H. & Dorrestein, P. C., 31 Oct 2016, In : Nature Microbiology. 2, 16197.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

73 Downloads (Pure)

Insect pathogenicity in plant-beneficial pseudomonads: phylogenetic distribution and comparative genomics

Flury, P., Aellen, N., Ruffner, B., Pechy-Tarr, M., Fataar, S., Metla, Z., Dominguez-Ferreras, A., Bloemberg, G., Frey, J., Goesmann, A., Raaijmakers, J. M., Duffy, B., Hofte, M., Blom, J., Smits, T. H. M., Keel, C. & Maurhofer, M., 2016, In : ISME Journal. 10, p. 2527-2542

Research output: Contribution to journal/periodicalArticleScientificpeer-review

16 Downloads (Pure)

Living on the edge: emergence of spontaneous gac mutations in Pseudomonas protegens during swarming motility

Song, C., Kidarsa, T., van de Mortel, J., Loper, J. E. & Raaijmakers, J. M., 2016, In : Environmental Microbiology. 18, 10, p. 3453-3465

Research output: Contribution to journal/periodicalArticleScientificpeer-review

5 Downloads (Pure)

Role of the GacS Sensor Kinase in the Regulation of Volatile Production by Plant Growth-Promoting Pseudomonas fluorescens SBW25

Cheng, X., Cordovez, V., Etalo, D. W., van der Voort, M. & Raaijmakers, J. M., 18 Nov 2016, In : Frontiers in Plant Science. 7, p. 1706 1 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access
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145 Downloads (Pure)

Soil immune responses

Raaijmakers, J. M. & Mazzola, M., 16 Jun 2016, In : Science. 352, 6292, p. 1392-1393 2 p.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

Open Access
10 Downloads (Pure)
2017

Antagonism between two root-associated beneficial Pseudomonas strains does not affect plant growth promotion and induced resistance against a leaf-chewing herbivore

Pangesti, N., Vandenbrande, S., Pineda, A., Dicke, M., Raaijmakers, J. M. & Van Loon, J. J. A., 2017, In : FEMS Microbiology Ecology. 93, 4, fix038.

Research output: Contribution to journal/periodicalArticleScientificpeer-review

1 Downloads (Pure)