Research output per year
Research output per year
- 1 - 50 out of 57 results
Search results
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2025
A chromosome phased diploid genome assembly of African hunting dog (Lycaon pictus)
Kliver, S., Kovacic, I., Mak, S., Sinding, M.-H. S., Stagegaard, J., Petersen, B., Nesme, J. & Gilbert, M. T. P., 2025, In: The Journal of Heredity. 116, 1, p. 78-87 10 p.Research output: Contribution to journal › Journal article › Research › peer-review
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Birmingham-group IncP-1α plasmids revisited: RP4, RP1 and RK2 are identical and their remnants can be detected in environmental isolates
Le, V. V. H., Gong, Z., Maccario, L., Bousquet, E., Parra, B., Dechesne, A., Sørensen, S. J. & Nesme, J., 2025, In: Microbial genomics. 11, 3, 13 p., 001381.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile1 Citation (Scopus)7 Downloads (Pure) -
Enzymatic exposure impacts microbial diversity and reduces biovolume of reverse osmosis membrane-associated biofilms
Khani, M., Kiesewalter, H. T., Hansen, M. F., Ronin, D., Nesme, J., Rasekh, B., Nosrati, M. & Burmølle, M., 2025, In: Chemical Engineering Journal. 507, 14 p., 160186.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile4 Downloads (Pure) -
Unfolding the collective functional potential of a synergistic multispecies community through genotypic and phenotypic analyses
Ronin, D., Hansen, M. F., Flaig, M. L., Dahl Dueholm, M. K., Hostrup Daugberg, A. O., Nesme, J., Kot, W. & Burmølle, M., Dec 2025, In: Biofilm. 10, 16 p., 100290.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile -
2024
Artificially selected rhizosphere microbiota modify plant growth in a soil-independent and species-dependent way
Jacquiod, S., Nesme, J., Ducourtieux, C., Pimet, E. & Blouin, M., 2024, (Accepted/In press) In: Plant and Soil.Research output: Contribution to journal › Journal article › Research › peer-review
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Characterization and Abundance of Plasmid-Dependent Alphatectivirus Bacteriophages
Parra, B., Lutz, V. T., Brøndsted, L., Carmona, J. L., Palomo, A., Nesme, J., Le, V. V. H., Smets, B. F. & Dechesne, A., 2024, In: Microbial Ecology. 87, 11 p., 85.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile2 Citations (Scopus)12 Downloads (Pure) -
Co-localization of antibiotic resistance genes is widespread in the infant gut microbiome and associates with an immature gut microbial composition
Li, X., Brejnrod, A., Trivedi, U., Russel, J., Thorsen, J., Shah, S. A., Vestergaard, G. A., Rasmussen, M. A., Nesme, J., Bisgaard, H., Stokholm, J. & Sørensen, S. J., 2024, In: Microbiome. 12, 1, 18 p., 87.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile5 Citations (Scopus)35 Downloads (Pure) -
Deciphering the Key Players of the Bacterial Microbiota Associated with Aerial Crown Gall Tumors on Rhododendron: Insights into the Gallobiome
Kuzmanović, N., Nesme, J., Wolf, J., Neumann-Schaal, M., Petersen, J., Fernandez-Gnecco, G., Spröer, C., Bunk, B., Overmann, J., Sørensen, S. J., Idczak, E. & Smalla, K., 2024, In: Phytobiomes Journal. 8, 3, p. 401-415 15 p.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile1 Citation (Scopus)7 Downloads (Pure) -
Horizontal transmission of a multidrug-resistant IncN plasmid isolated from urban wastewater
Yu, Z., Wang, Q., Pinilla-Redondo, R., Madsen, J. S., Clasen, K. A. D., Ananbeh, H., Olesen, A. K., Gong, Z., Yang, N., Dechesne, A., Smets, B., Nesme, J. & Sørensen, S. J., 2024, In: Ecotoxicology and Environmental Safety. 271, 12 p., 115971.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile54 Downloads (Pure) -
Insights into the circular: The cryptic plasmidome and its derived antibiotic resistome in the urban water systems
Yu, Z., He, W., Klincke, F., Madsen, J. S., Kot, W., Hansen, L. H., Quintela-Baluja, M., Balboa, S., Dechesne, A., Smets, B., Nesme, J. & Sørensen, S. J., 2024, In: Environment International. 183, 12 p., 108351.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile5 Citations (Scopus)49 Downloads (Pure) -
Insights into the ecology of the infant gut plasmidome
He, W., Russel, J., Klincke, F., Nesme, J. & Sørensen, S. J., 2024, In: Nature Communications. 15, 1, 13 p., 6924.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile6 Citations (Scopus)15 Downloads (Pure) -
Interspecific interactions facilitate keystone species in a multispecies biofilm that promotes plant growth
Yang, N., Røder, H. L., Wicaksono, W. A., Wassermann, B., Russel, J., Li, X., Nesme, J., Berg, G., Sørensen, S. J. & Burmølle, M., 2024, In: The ISME Journal. 18, 1, 15 p.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile13 Citations (Scopus)42 Downloads (Pure) -
Single-cell RNA sequencing reveals plasmid constrains bacterial population heterogeneity and identifies a non-conjugating subpopulation
Cyriaque, V., Ibarra-Chávez, R., Kuchina, A., Seelig, G., Nesme, J. & Madsen, J. S., 2024, In: Nature Communications. 15, 1, 10 p., 5853.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile2 Citations (Scopus)8 Downloads (Pure) -
2023
Draft genomes of seven isolates from Danish wastewater facilities belonging to Pseudomonas, Bacillus, Pseudochrobactrum, Brevundimonas, and Pandoraea
Maccario, L., Silva, A. F., Nesme, J., Amador, C. I., Sørensen, S. J., Cooper, V. S. & Røder, H. L., 2023, In: Microbiology resource announcements. 12, 12, 4 p.Research output: Contribution to journal › Letter › peer-review
Open AccessFile21 Downloads (Pure) -
Hordeum vulgare differentiates its response to beneficial bacteria
Duan, Y., Han, M., Grimm, M., Schierstaedt, J., Imani, J., Cardinale, M., Le Jean, M., Nesme, J., Sørensen, S. J. & Schikora, A., 2023, In: BMC Plant Biology. 23, 1, 16 p., 460.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile5 Citations (Scopus)30 Downloads (Pure) -
Plasmid permissiveness of wastewater microbiomes can be predicted from 16S rRNA sequences by machine learning
Moradigaravand, D., Li, L., Dechesne, A., Nesme, J., de la Cruz, R., Ahmad, H., Banzhaf, M., Sørensen, S. J., Smets, B. F. & Kreft, J. U., 2023, In: Bioinformatics (Oxford, England). 39, 7, 11 p.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile3 Citations (Scopus)44 Downloads (Pure) -
2022
A novel and affordable bioaugmentation strategy with microbial extracts to accelerate the biodegradation of emerging contaminants in different media
Aguilar-Romero, I., van Dillewijn, P., Nesme, J., Sørensen, S. J., Nogales, R., Delgado-Moreno, L. & Romero, E., 2022, In: Science of the Total Environment. 834, 10 p., 155234.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile12 Citations (Scopus)24 Downloads (Pure) -
Biofilm cultivation facilitates coexistence and adaptive evolution in an industrial bacterial community
Henriksen, N. N. S. E., Hansen, M. F., Kiesewalter, H. T., Russel, J., Nesme, J., Foster, K. R., Svensson, B., Øregaard, G., Herschend, J. & Burmølle, M., 2022, In: npj Biofilms and Microbiomes. 8, 8 p., 59.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile11 Citations (Scopus)65 Downloads (Pure) -
Biosolids for safe land application: does wastewater treatment plant size matters when considering antibiotics, pollutants, microbiome, mobile genetic elements and associated resistance genes?
Wolters, B., Hauschild, K., Blau, K., Mulder, I., Heyde, B. J., Sørensen, S. J., Siemens, J., Jechalke, S., Smalla, K. & Nesme, J., 2022, In: Environmental Microbiology. 24, 3, p. 1573-1589 17 p.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile21 Citations (Scopus)54 Downloads (Pure) -
CRISPR-Cas systems are widespread accessory elements across bacterial and archaeal plasmids
Pinilla-Redondo, R., Russel, J., Mayo-Muñoz, D., Shah, S. A., Garrett, R. A., Nesme, J., Madsen, J. S., Fineran, P. C. & Sørensen, S. J., 2022, In: Nucleic Acids Research. 50, 8, p. 4315-4328Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile57 Citations (Scopus)76 Downloads (Pure) -
Deciphering bacteria associated with a pre-parasitic stage of the root-knot nematode Meloidogyne hapla in nemato-suppressive and nemato-conducive soils
Topalović, O., Santos, S. S., Heuer, H., Nesme, J., Kanfra, X., Hallmann, J., Sørensen, S. J. & Vestergård, M., 2022, In: Applied Soil Ecology. 172, 9 p., 104344.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile17 Citations (Scopus)47 Downloads (Pure) -
Exudates from Miscanthus x giganteus change the response of a root-associated Pseudomonas putida strain towards heavy metals
Zadel, U., Cruzeiro, C., Raj Durai, A. C., Nesme, J., May, R., Balázs, H., Michalke, B., Płaza, G., Schröder, P., Schloter, M. & Radl, V., 2022, In: Environmental Pollution. 313, 13 p., 119989.Research output: Contribution to journal › Journal article › Research › peer-review
8 Citations (Scopus) -
Importance of substrate quality and clay content on microbial extracellular polymeric substances production and aggregate stability in soils
Olagoke, F. K., Bettermann, A., Nguyen, P. T. B., Redmile-Gordon, M., Babin, D., Smalla, K., Nesme, J., Sørensen, S. J., Kalbitz, K. & Vogel, C., 2022, In: Biology and Fertility of Soils. 58, 4, p. 435-457 23 p.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile54 Citations (Scopus)31 Downloads (Pure) -
IncHI1A plasmids potentially facilitate horizontal flow of antibiotic resistance genes to pathogens in microbial communities of urban residential sewage
Olesen, A. K., Pinilla-Redondo, R., Hansen, M. F., Russel, J., Dechesne, A., Smets, B. F., Madsen, J. S., Nesme, J. & Sørensen, S. J., 2022, In: Molecular Ecology. 31, 5, p. 1595-1608Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile13 Citations (Scopus)56 Downloads (Pure) -
Influence of sewage sludge stabilization method on microbial community and the abundance of antibiotic resistance genes
Major, N., Jechalke, S., Nesme, J., Goreta Ban, S., Černe, M., Sørensen, S. J., Ban, D., Grosch, R., Schikora, A. & Schierstaedt, J., 2022, In: Waste Management. 154, p. 126-135 10 p.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile7 Citations (Scopus)17 Downloads (Pure) -
Long-Term Fertilization Strategy Impacts Rhizoctonia solani–Microbe Interactions in Soil and Rhizosphere and Defense Responses in Lettuce
Sommermann, L., Babin, D., Behr, J. H., Chowdhury, S. P., Sandmann, M., Windisch, S., Neumann, G., Nesme, J., Sørensen, S. J., Schellenberg, I., Rothballer, M., Geistlinger, J., Smalla, K. & Grosch, R., 2022, In: Microorganisms. 10, 9, 27 p., 1717.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile7 Citations (Scopus)17 Downloads (Pure) -
Metagenomic evidence for co-occurrence of antibiotic, biocide and metal resistance genes in pigs
Li, X., Rensing, C., Vestergaard, G., Arumugam, M., Nesme, J., Gupta, S., Brejnrod, A. D. & Sørensen, S. J., 2022, In: Environment International. 158, 10 p., 106899.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile56 Citations (Scopus)85 Downloads (Pure) -
Quantification and fate of plasmid-specific bacteriophages in wastewater: Beyond the F-coliphages
He, Z., Parra, B., Nesme, J., Smets, B. F. & Dechesne, A., 2022, In: Water Research. 227, 8 p., 119320.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile6 Citations (Scopus)14 Downloads (Pure) -
2021
Broad Dissemination of Plasmids across Groundwater-Fed Rapid Sand Filter Microbiomes
Pinilla-Redondo, R., Olesen, A. K., Russel, J., de Vries, L. E., Christensen, L. D., Musovic, S., Nesme, J. & Sørensen, S. J., 2021, In: mBio. 12, 6, 13 p., e0306821.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile15 Citations (Scopus)57 Downloads (Pure) -
Comparative Genomics of Novel Agrobacterium G3 Strains Isolated From the International Space Station and Description of Agrobacterium tomkonis sp. nov.
Singh, N. K., Lavire, C., Nesme, J., Vial, L., Nesme, X., Mason, C. E., Lassalle, F. & Venkateswaran, K., 2021, In: Frontiers in Microbiology. 12, 15 p., 765943.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile25 Citations (Scopus)16 Downloads (Pure) -
Distinct rhizomicrobiota assemblages and plant performance in lettuce grown in soils with different agricultural management histories
Babin, D., Sommermann, L., Chowdhury, S. P., Behr, J. H., Sandmann, M., Neumann, G., Nesme, J., Sørensen, S. J., Schellenberg, I., Rothballer, M., Geistlinger, J., Smalla, K. & Grosch, R., 2021, In: FEMS Microbiology Ecology. 97, 4, 21 p., fiab027.Research output: Contribution to journal › Journal article › Research › peer-review
10 Citations (Scopus) -
EMBRACE-WATERS statement: Recommendations for reporting of studies on antimicrobial resistance in wastewater and related aquatic environments
Hassoun-Kheir, N., Stabholz, Y., Kreft, J.-U., de la Cruz, R., Dechesne, A., Smets, B. F., Romalde, J. L., Lema, A., Balboa, S., García-Riestra, C., Torres-Sangiao, E., Neuberger, A., Graham, D., Quintela-Baluja, M., Stekel, D. J., Graham, J., Pruden, A., Nesme, J., Sørensen, S. J. & Hough, R. & 1 others, , 2021, In: One Health. 13, 9 p., 100339.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile13 Citations (Scopus)15 Downloads (Pure) -
Emergent bacterial community properties induce enhanced drought tolerance in Arabidopsis
Yang, N., Nesme, J., Røder, H. L., Li, X., Zuo, Z., Petersen, M., Burmølle, M. & Sørensen, S. J., 2021, In: npj Biofilms and Microbiomes. 7, 11 p., 82.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile73 Citations (Scopus)79 Downloads (Pure) -
Extended-Spectrum β-Lactamase and Carbapenemase Genes are Substantially and Sequentially Reduced during Conveyance and Treatment of Urban Sewage
Li, L., Nesme, J., Quintela-Baluja, M., Balboa, S., Hashsham, S., Williams, M. R., Yu, Z., Sørensen, S. J., Graham, D. W., Romalde, J. L., Dechesne, A. & Smets, B. F., 2021, In: Environmental Science & Technology. 55, 9, p. 5939-5949 11 p.Research output: Contribution to journal › Journal article › Research › peer-review
File28 Citations (Scopus)43 Downloads (Pure) -
Identification of Beneficial Microbial Consortia and Bioactive Compounds with Potential as Plant Biostimulants for a Sustainable Agriculture
Tabacchioni, S., Passato, S., Ambrosino, P., Huang, L., Caldara, M., Cantale, C., Hett, J., Del Fiore, A., Fiore, A., Schlüter, A., Sczyrba, A., Maestri, E., Marmiroli, N., Neuhoff, D., Nesme, J., Sørensen, S. J., Aprea, G., Nobili, C., Presenti, O. & Giovannetti, G. & 4 others, , 2021, In: Microorganisms. 9, 2, 23 p., 426.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile61 Citations (Scopus)67 Downloads (Pure) -
Impact of Long-Term Organic and Mineral Fertilization on Rhizosphere Metabolites, Root–Microbial Interactions and Plant Health of Lettuce
Windisch, S., Sommermann, L., Babin, D., Chowdhury, S. P., Grosch, R., Moradtalab, N., Walker, F., Höglinger, B., El-Hasan, A., Armbruster, W., Nesme, J., Sørensen, S. J., Schellenberg, I., Geistlinger, J., Smalla, K., Rothballer, M., Ludewig, U. & Neumann, G., 2021, In: Frontiers in Microbiology. 11, 26 p., 597745.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile27 Citations (Scopus)55 Downloads (Pure) -
Importance of microbial communities at the root-soil interface for extracellular polymeric substances and soil aggregation in semiarid grasslands
Bettermann, A., Zethof, J. H. T., Babin, D., Cammeraat, E. L. H., Solé-Benet, A., Lázaro, R., Luna, L., Nesme, J., Sørensen, S. J., Kalbitz, K., Smalla, K. & Vogel, C., 2021, In: Soil Biology & Biochemistry. 159, 14 p., 108301.Research output: Contribution to journal › Journal article › Research › peer-review
28 Citations (Scopus) -
Kin discrimination promotes horizontal gene transfer between unrelated strains in Bacillus subtilis
Stefanic, P., Belcijan, K., Kraigher, B., Kostanjšek, R., Nesme, J., Madsen, J. S., Kovac, J., Sørensen, S. J., Vos, M. & Mandic-Mulec, I., 2021, In: Nature Communications. 12, 11 p., 3457.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile22 Citations (Scopus)51 Downloads (Pure) -
Metagenomic analysis of a keratin-degrading bacterial consortium provides insight into the keratinolytic mechanisms
Kang, D., Huang, Y., Nesme, J., Herschend, J., Jacquiod, S., Kot, W., Hansen, L. H., Lange, L. & Sørensen, S. J., 2021, In: Science of the Total Environment. 761, 9 p., 143281.Research output: Contribution to journal › Journal article › Research › peer-review
33 Citations (Scopus) -
Reduced tillage, cover crops and organic amendments affect soil microbiota and improve soil health in Uruguayan vegetable farming systems
Cerecetto, V., Smalla, K., Nesme, J., Garaycochea, S., Fresia, P., Sørensen, S. J., Babin, D. & Leoni, C., 2021, In: FEMS Microbiology Ecology. 97, 3, 14 p., fiab023.Research output: Contribution to journal › Journal article › Research › peer-review
18 Citations (Scopus) -
Root exposure to apple replant disease soil triggers local defense response and rhizoplane microbiome dysbiosis
Balbín-Suárez, A., Jacquiod, S., Rohr, A. D., Liu, B., Flachowsky, H., Winkelmann, T., Beerhues, L., Nesme, J., Sørensen, S. J., Vetterlein, D. & Smalla, K., 2021, In: FEMS Microbiology Ecology. 97, 4, 14 p., fiab031.Research output: Contribution to journal › Journal article › Research › peer-review
36 Citations (Scopus) -
Soil microbial legacies differ following drying-rewetting and freezing-thawing cycles
Meisner, A., Snoek, B. L., Nesme, J., Dent, E., Jacquiod, S., Classen, A. T. & Priemé, A., 2021, In: The ISME Journal. 15, 4, p. 1207-1221 15 p.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile83 Citations (Scopus)36 Downloads (Pure) -
2020
Changes induced by heavy metals in the plant-associated microbiome of Miscanthus x giganteus
Zadel, U., Nesme, J., Michalke, B., Vestergaard, G., Płaza, G. A., Schröder, P., Radl, V. & Schloter, M., 2020, In: Science of the Total Environment. 711, 10 p., 134433.Research output: Contribution to journal › Journal article › Research › peer-review
56 Citations (Scopus) -
Comparison of antibiotic-resistant bacteria and antibiotic resistance genes abundance in hospital and community wastewater: A systematic review
Hassoun-Kheir, N., Stabholz, Y., Kreft, J.-U., de la Cruz, R., Romalde, J. L., Nesme, J., Sørensen, S. J., Smets, B. F., Graham, D. & Paul, M., 2020, In: Science of the Total Environment. 743, 11 p., 140804.Research output: Contribution to journal › Review › peer-review
179 Citations (Scopus) -
Composted sewage sludge influences the microbiome and persistence of human pathogens in soil
Major, N., Schierstaedt, J., Jechalke, S., Nesme, J., Ban, S. G., Černe, M., Sørensen, S. J., Ban, D. & Schikora, A., 2020, In: Microorganisms. 8, 7, 14 p., 1020.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile24 Citations (Scopus)78 Downloads (Pure) -
Construction of Simplified Microbial Consortia to Degrade Recalcitrant Materials Based on Enrichment and Dilution-to-Extinction Cultures
Kang, D., Jacquiod, S., Herschend, J., Wei, S., Nesme, J. & Sørensen, S. J., 2020, In: Frontiers in Microbiology. 10, 10 p., 3010.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile47 Citations (Scopus)140 Downloads (Pure) -
Metal-induced bacterial interactions promote diversity in river-sediment microbiomes
Cyriaque, V., Géron, A., Billon, G., Nesme, J., Werner, J., Gillan, D. C., Sørensen, S. J. & Wattiez, R., 2020, In: F E M S Microbiology Ecology. 96, 6, 12 p., fiaa076.Research output: Contribution to journal › Journal article › Research › peer-review
File15 Citations (Scopus)17 Downloads (Pure) -
Plasmids persist in a microbial community by providing fitness benefit to multiple phylotypes
Li, L., Dechesne, A., Madsen, J. S., Nesme, J., Sørensen, S. J. & Smets, B. F., 2020, In: I S M E Journal. 14, 5, p. 1170-1181 12 p.Research output: Contribution to journal › Journal article › Research › peer-review
67 Citations (Scopus) -
Prokaryotic Community Composition and Extracellular Polymeric Substances Affect Soil Microaggregation in Carbonate Containing Semiarid Grasslands
Zethof, J. H. T., Bettermann, A., Vogel, C., Babin, D., Cammeraat, E. L. H., Solé-Benet, A., Lázaro, R., Luna, L., Nesme, J., Woche, S. K., Sørensen, S. J., Smalla, K. & Kalbitz, K., 2020, In: Frontiers in Environmental Science. 8, 19 p., 51.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile22 Citations (Scopus)137 Downloads (Pure) -
Rhizosphere microbial communities associated to rose replant disease: links to plant growth and root metabolites
Yim, B., Baumann, A., Grunewaldt-Stöcker, G., Liu, B., Beerhues, L., Zühlke, S., Sapp, M., Nesme, J., Sørensen, S. J., Smalla, K. & Winkelmann, T., 2020, In: Horticulture Research. 7, 16 p., 144.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile24 Citations (Scopus)34 Downloads (Pure)