2022

Turning food waste to antibacterial biocompatible fungal chitin/chitosan monofilaments.

Svensson, S. E., Oliveira, A. O., Adolfsson, K. H., Heinmaa, Ivo., Root, A., Kondori, N., Ferreira, J. A., Hakkarainen, M., Zamani, A.

International Journal of Biological Macromolecules (2022) 

The Transcription Factor SpoVG Is of Major Importance for Biofilm Formation of Staphylococcus epidermis under In Vitro Conditions, but Dispensable for In Vivo Biofilm Formation. 

Benthien, H., Fresenborg, B., Pätzold, L., Elhawy, M. I., Huc-Brandt, S., Beisswenger, C., Krasteva-Christ, G., Becker, S. L., Molle, V., Knobloch, J. K., Bischoff, M.

International Journal of Molecular Sciences (2022) 

Reliable budding pattern classification of yeast cells with time-resolved measurement of metabolite production.

Winters, M., Aru, V., Howell, K., Arneborg, N. (2022)

BioTechniques, (2022) 

2021

Fungal textile alternatives from bread waste with leather-like properties.

Wijayarathna, E.R.K.B., Mohammadkhani, G., Soufiani, A.M., Adolfsson, K.H., Ferreira, J.A., Hakkarainen, M., Berglund, L., Heinmaa, I., Root, A., Zamani, A.  (2021)

Resources, Conservation and Recycling (2021) 

Penicillium roqueforti conidia induced by L-amino acids can germinate without detectable swelling.

Punt, M., Teertstra, W. R., Wösten, H. A. B. (2021)

Antonie van Leeunwenhoek (2021) 

Episymbiotic Saccharibacteria suppresses gingival inflammation and bone loss in mice through host bacterial modulation.

Chipashvili, O., Utter, D. R., Bedree, J. K., Ma, Y., Schulte, F., Mascarin, G., Alayyoubi, Y., Chouhan, D., Hardt, M., Bidlack, F., Hasturk, H., He, X., McLean, J. S., Bor, B.   (2021)

Cell Host & Microbe, 2021. 

Interactions of polymyxin B in combination with aztreonam, minocycline, meropenem and rifampicin against Escherichia coli producing NDM and OXA-48-group carbapenemases

Olsson, A., Hong, M., Al-Farsi, H., Giske, C.G., Lagerbäck, P., Tängdén, T.  (2021)

Antimicrobial Agents and Chemotherapy, 2021. 

Antifungal Resistance in Isolates of Aspergillus from a Pig Farm

White, J, K., Nielsen, J, L., Poulsen, J, S., Madsen, A, M. (2021)

MDPI – Atmosphere 12, 2021. 

Inhibitory effects of binary combinations of microbial metabolites on the growth of tolerant Penicillium roqueforti and Mucor circinelloides

Shi, C., Knøchel, S. (2021)

LWT – Food Science and Technology 149, 2021. 

Valorization of Bread Waste to a Fiber- and Protein-Rich Fungal Biomass

Svensson, S. E., Bucuricova, L., Ferreira, J. A., Filho, P. F. S., Taherzadeh, M. J., Zamani, A. (2021)

Fermentation, 7 2021. 

Physiological responses of Aspergillus niger challenged with itraconazole

Poulsen, J. S., Madsen, A. M., White, J. K., Nielsen, J. L. (2021)

Antimicrobial Agents and Chemotherapy, April 2021. 

The Phosphoarginine Phosphatase PtpB from Staphylococcus aureus Is Involved in Bacterial Stress Adaptation during Infection

Elhawy, M. I., Huc-Brandt, S., Pätzold, L., Gannoun-Zaki, L., Abdrabou, A, M, M., Bischoff, M., Molle, V. (2021)

Cells, 10. 

Sensitivity of Molds From Spoiled Dairy Products Towards Bioprotective Lactic Acid Bacteria Cultures

Shi, C., Knøchel, S. (2021)

Frontiers in Microbiology, 12. 

Improved diabetic wound healing by bovine lactoferricin is associated with relevant changes in the skin immune response and microbiota

Mouritzen, V.M., Petkovic, M., Qvist, K., Poulsen, S.S., Alarico, S., Leal, C. E., Dalgaard, T. L., Empadinhas, N., Carvalho, E., Jenssen, H. (2021)

Molecular Therapy: Medthods & Clinical Development. 

Fungal Textiles: Wet spinning of fungal microfibers to produce monofilament yarns

Svensson, S.E., Ferreira, J.A., Hakkarainen, M., Adolfsson, K. H., Zamani, A. (2021)

Sustainable Materials and Technologies. 

2020

Evaluation of polymyxin B in combination with 13 other antibiotics against carbapenemase-producing Klebsiella pneumoniae in time-lapse microscopy and time-kill experiments

Wistrand-Yuen, P., Olsson, A., Skarp, K., Friberg, L. E., Nielsen, E. I., Lagerbäck, P., & Tängdén, T. (2020).

Clinical Microbiology and Infection. 

Evaluation of the efficacy of antibiotic combinations against multidrug-resistant Pseudomonas aeruginosa in automated time-lapse microscopy and static time-kill experiments

Olsson, A., Wistrand-Yuen, P., Nielsen, E. I., Friberg, L. E., Sandegren, L., Lagerbäck, P., & Tängdén, T. (2020).

Antimicrobial Agents and Chemotherapy. 

Cannabidiol is an effective helper compound in combination with bacitracin to kill Gram-positive bacteria

Wassmann, C.S., Højrup, P. & Klitgaard, J.K. (2020)

Scientific reports 10, 4112.  

Insights Obtained by Culturing Saccharibacteria With Their Bacterial Hosts

Bor, B., Collins, A. J., Murugkar, P. P., Balasubramanian, S., To, T. T., Hendrickson, E. L., … & McLean, J. S. (2020).

Journal of Dental Research, 0022034520905792.

Screening for double carbapenem therapies effective against multidrug resistant Enterobacteriaceae

Vickberg, K. (2019)

Master thesis, Uppsala University, Department of Medical Biochemistry and Microbiology. 

Bacterial Flow Cytometry and Imaging as Potential Process Monitoring Tools for Industrial Biotechnology

Narayana, S. K., Mallick, S., Siegumfeldt, H., & van den Berg, F. (2020).

Fermentation, 6(1), 10.

2019

Growth and single cell kinetics of the loricate choanoflagellate Diaphanoeca grandis

Eriksen, N. T., Tophøj, J., Wollenberg, R. D., Sondergaard, T. E., Funch, P., & Andersen, P. (2019).

Scientific reports, 9(1), 1-12. 

Evaluation of the inhibitory effect of alginate oligosaccharide on yeast and mould in yoghurt

Bouillon, G., Gåserød, O., & Rattray, F. P. (2019).

International Dairy Journal. 

The most heat‐resistant conidia observed to date are formed by distinct strains of Paecilomyces variotii

van den Brule, T., Punt, M., Teertstra, W., Houbraken, J., Wösten, H., & Dijksterhuis, J. (2019).

Environmental microbiology. 

Immunomodulatory potential of Nisin A with application in wound healing 

Mouritzen, M. V., Andrea, A., Qvist, K., Poulsen, S. S., & Jenssen, H. (2019).

Wound Repair and Regeneration.

Fusaoctaxin A, an example of a two-step mechanism for non-ribosomal peptide assembly and maturation in fungi

Westphal, K. R., Nielsen, K. A. H., Wollenberg, R. D., Møllehøj, M. B., Bachleitner, S., Studt, L., … & Sondergaard, T. E. (2019).

Toxins, 11(5), 277. 

KRAS mutations in the parental tumour accelerate in vitro growth of tumoroids established from colorectal adenocarcinoma

Mousavi, N., Truelsen, S. L. B., Hagel, G., Jorgensen, L. N., Harling, H., Timmermans, V., … & Thastrup, J. (2019).

International journal of experimental pathology.  

Advances in Rapid Detection and Antimicrobial Susceptibility Tests: A Review

Mishra, P., Mishra, K. P., Singh, D., Ganju, L., Kumar, B., & Singh, S. B. (2019).

Defence Life Science Journal, 4(1), 12-20.

2018

In Vitro Interaction Between Macrophages And Cubosomes For Oral Vaccine Delivery Imaged By Coherent Anti-stokes Raman Scattering (CARS) And Automated Microscopy

Nielsen, L. H., Bargholz, M. T., Saarinen, J., von Halling Laier, C., Ilchenko, O., Isomäki, A. O., … & Strachan, C. J. (2018).

In Controlled Release Society Annual Meeting & Exposition 2018. 

Rapid antimicrobial susceptibility testing and β-lactam-induced cell morphology changes of Gram-negative biological threat pathogens by optical screening

McLaughlin, H. P., & Sue, D. (2018).

BMC microbiology, 18(1), 218. 

Analysis of Whole-Genome Sequences for the Prediction of Penicillin Resistance and β-Lactamase Activity in Bacillus anthracis

Gargis, A. S., McLaughlin, H. P., Conley, A. B., Lascols, C., Michel, P. A., Gee, J. E., … & Weigel, L. M. (2018).

mSystems, 3(6), e00154-18.

Phenotypic antibiotic susceptibility testing of pathogenic bacteria using photonic readout methods: recent achievements and impact

Tannert, A., Grohs, R., Popp, J., & Neugebauer, U. (2018).

Applied Microbiology and Biotechnology, 1-18. 

Innovations in Antimicrobial Stewardship

Bal, A. M., & Gould, I. M. (2018).

Bal, A. M., & Gould, I. M. (2018).

FlbA-regulated gene rpnR is involved in stress resistance and impacts protein secretion when Aspergillus niger is grown on xylose

Aerts, D., van den Bergh, S. G., Post, H., Altelaar, M. A., Arentshorst, M., Ram, A. F., Ohm, R. A., & Wösten, H. A. (2018).

Appl. Environ. Microbiol., AEM-02282.

Advances in online methods for monitoring microbial growth.

Zhang, X., Jiang, X., Hao, Z., & Qu, K. (2018).

Biosensors and Bioelectronics. 

Cellular polarity modulates drug resistance in primary colorectal cancers via orientation of the multidrug resistance protein ABCB1.

Ashley, N., Ouaret, D., & Bodmer, W. F. (2018)

The Journal of pathology. 

Optimized Scratch Assay for In Vitro Testing of Cell Migration with an Automated Optical Camera.

Mouritzen, M. V., & Jenssen, H. (2018).

JoVE (Journal of Visualized Experiments), (138), e57691-e57691. 

Identification and characterization of a new antifungal peptide in fermented milk product containing bioprotective Lactobacillus cultures.

McNair, L. K., Siedler, S., Vinther, J. M., Hansen, A. M., Neves, A. R., Garrigues, C., Jäger, A. K., Franzyk, H. & Staerk, D. (2018).

FEMS Yeast Research. 

Molecular mechanisms of thioridazine resistance in Staphylococcus aureus

Wassmann, C. S., Lund, L. C., Thorsing, M., Lauritzen, S. P., Kolmos, H. J., Kallipolitis, B. H., & Klitgaard, J. K. (2018).

PloS one, 13(8), e0201767. 

Quorum Sensing Modulates the Epibiotic-Parasitic Relationship Between Actinomyces odontolyticus and Its Saccharibacteria epibiont, a Nanosynbacter lyticus Strain, TM7x

WBedree, J. K., Bor, B., Cen, L., Edlund, A., Lux, R., McLean, J. S., Shi, W., & He, X. (2018).

Frontiers in microbiology, 9. 

Identification and antibiotic‐susceptibility profiling of infectious bacterial agents: a review of current and future trends

Maugeri, G., Lychko, I., Sobral, R., & Roque, A. C. A. (2018).

Biotechnology journal, 1700750. 

Combined detection of C-reactive protein and PBMC quantification from whole blood in an integrated lab-on-a-disc microfluidic platform

Uddin, R., Donolato, M., Hwu, E. T., Hansen, M. F., & Boisen, A. (2018).

Sensors and Actuators B: Chemical. 

In vitro methods to assess drug precipitation in the fasted small intestine–a PEARRL review

O’Dwyer, P. J., Litou, C., Box, K. J., Dressman, J. B., Kostewicz, E. S., Kuentz, M., & Reppas, C. (2018).

Journal of Pharmacy and Pharmacology. 

Neurotensin, substance P, and insulin enhance cell migration.

Mouritzen, M. V., Abourayale, S., Ejaz, R., Ardon, C. B., Carvalho, E., Dalgaard, L. T.,  Roursgaard, M., & Jenssen, H. (2018).

Journal of Peptide Science, e3093. 

LL‐37 fragments have antimicrobial activity against Staphylococcus epidermidis biofilms and wound healing potential in HaCaT cell line

Saporito, P., Vang Mouritzen, M., Løbner‐Olesen, A., & Jenssen, H. (2018).

Journal of Peptide Science, e3080 

Optimized procedures for generating an enhanced, near physiological 2D culture system from porcine intestinal organoids

van der Hee, B., Loonen, L. M. P., Taverne, N., Taverne-Thiele, J. J., Smidt, H., & Wells, J. M. (2018).

Stem Cell Research  

Real-Time Digital Bright Field Technology for Rapid Antibiotic Susceptibility Testing

Canali, C., Spillum, E., Valvik, M., Agersnap, N., & Olesen, T. (2018).

Antibiotic Resistance Protocols (pp. 75-84). Humana Press, New York, NY  

2017

Cellular effects and delivery propensity of penetratin is influenced by conjugation to parathyroid hormone fragment 1-34 in synergy with pH.

Kristensen, M., Nielsen, L. H., Zór, K., Boisen, A., Christensen, M. V., Berthelsen, J., & Mørck Nielsen, H. (2017).

Bioconjugate Chemistry.

The Immunomodulatory Drug Glatiramer Acetate is Also an Effective Antimicrobial Agent that Kills Gram-negative Bacteria.

Christiansen, S. H., Murphy, R. A., Juul-Madsen, K., Fredborg, M., Hvam, M. L., Axelgaard, E., … & Nyengaard, J. R. (2017).

Scientific Reports, 7(1), 15653.

Combining diagnostic methods for antimicrobial susceptibility testing–A comparative approach

Kłodzińska, S. N., Priemel, P. A., Rades, T., & Nielsen, H. M. (2017).

Journal of Microbiological Methods. 

Automated time-lapse microscopy a novel method for screening of antibiotic combination effects against multidrug-resistant Gram-negative bacteria.

Ungphakorn, W., Lagerbäck, P., Nielsen, E. I., & Tängdén, T. (2017).

Clinical Microbiology and Infection. 

Imaging for monitoring downstream processing of fermentation broths.

Moiseyenko, R., Baum, A., Jørgensen, T. M., Glanville, S., Laursen, C. N., Mansouri, S. S., & Gernaey, K. V. (2017).

In Recent Advances in Fermentation Technology (RAFT 2017). 

Short-term spheroid culture of primary colorectal cancer cells as an in vitro model for personalizing cancer medicine.

Short-term spheroid culture of primary colorectal cancer cells as an in vitro model for personalizing cancer medicine.

PloS one. 

Emerging Microtechnologies and Automated Systems for Rapid Bacterial Identification and Antibiotic Susceptibility Testing.

Li, Y., Yang, X., & Zhao, W. (2017).

SLAS TECHNOLOGY: Translating Life Sciences Innovation.

New evidence for the mechanism of action of a type-2 diabetes drug using a magnetic bead-based automated biosensing platform.

Uddin, R., Habiba, N. E., Rena, G., Hwu, E. T., & Boisen, A. (2017).

ACS sensors. 

Development of a video-microscopic tool to evaluate the precipitation kinetics of poorly-water soluble drugs: A case study with tadalafil and HPMC

Development of a video-microscopic tool to evaluate the precipitation kinetics of poorly-water soluble drugs: A case study with tadalafil and HPMC

Molecular Pharmaceutics. 

Combination of thioridazine and dicloxacillin as a possible treatment strategy of staphylococci

Rasmussen, K. S., Poulsen, M. Ø., Jacobsen, K., Skov, M. N., Kolmos, H. J., Kallipolitis, B. H., & Klitgaard, J. K. (2017).

The new microbiologica, 40(2). 

Synergistic activities of meropenem double and triple combinations against carbapenemase-producing Enterobacteriaceae

Synergistic activities of meropenem double and triple combinations against carbapenemase-producing Enterobacteriaceae

Diagnostic Microbiology and Infectious Disease. 

Optical screening for rapid antimicrobial susceptibility testing and for observation of phenotypic diversity among strains of the genetically clonal species Bacillus anthracis

McLaughlin HP, Gargis AS, Michel P, Sue D, Weigel LM. (2017).

J Clin Microbiol 55:959–970. 

New and developing diagnostic technologies for urinary tract infections

Davenport, M., Mach, K. E., Shortliffe, L. M. D., Banaei, N., Wang, T. H., & Liao, J. C. (2017).

Nature Reviews Urology. 

Current and emerging techniques for antibiotic susceptibility tests

Syal K, Mo M, Yu H, Iriya R, Jing W, Guodong S, Wang S, Grys TE, Haydel SE, Tao N.

Theranostics 2017; 7(7):1795-1805. 

Maturation of conidia on conidiophores of Aspergillus niger

Teertstra, W. R., Tegelaar, M., Dijksterhuis, J., Golovina, E. A., Ohm, R. A., & Wösten, H. A. (2017).

Fungal Genetics and Biology, 98, 61-70. 

Evaluation of automated time-lapse microscopy for assessment of in vitro activity of antibiotics

Ungphakorn, W., Malmberg, C., Lagerbäck, P., Cars, O., Nielsen, E. I., & Tängdén, T. (2017).

Journal of Microbiological Methods, 132, 69-75. 

2016

Fast Screening of Antibacterial Compounds from Fusaria

Sondergaard, T. E., Fredborg, M., Oppenhagen Christensen, A. M., Damsgaard, S. K., Kramer, N. F., Giese, H., & Sørensen, J. L. (2016).

Toxins, 8(12), 355. 

Real-time imaging of the growth-inhibitory effect of JS399-19 on Fusarium

Wollenberg, R. D., Donau, S. S., Nielsen, T. T., Sørensen, J. L., Giese, H., Wimmer, R., & Søndergaard, T. E. (2016).

Pesticide Biochemistry and Physiology, 134, 24-30.

Human serum-derived protein removes the need for coating in defined human pluripotent stem cell culture

Pijuan-Galitó, S., Tamm, C., Schuster, J., Sobol, M., Forsberg, L., Merry, C. L., & Annerén, C. (2016).

Nature Communications, 7: 12170. 

Lab-on-a-disc agglutination assay for protein detection by optomagnetic readout and optical imaging using nano-and micro-sized magnetic beads

Uddin, R., Burger, R., Donolato, M., Fock, J., Creagh, M., Hansen, M. F., & Boisen, A. (2016).

Biosensors and Bioelectronics, 85, 351-357. 

The In Vitro Redundant Enzymes PurN and PurT are both essential for systemic infection of mice in Salmonella enterica serovar Typhimurium

Jelsbak, L., Mortensen, M. I., Kilstrup, M., & Olsen, J. E. (2016).

Infection and immunity, 84(7), 2076-2085.  

2015

Integration of agglutination assay for protein detection in microfluidic disc using Blu-ray optical pickup unit and optical fluid scanning

Uddin, R., Burger, R., Donolato, M., Fock, J., Creagh, M., Hansen, M. F., & Boisen, A. (2015).

Proceedings of Microtas 2015, Gyeongju, Korea. 

Real-time monitoring of fungal inhibition and morphological changes

Aunsbjerg, S. D., Andersen, K. R., & Knøchel, S. (2015).

Journal of microbiological methods, 119, 196-202. 

Automated image analysis for quantification of filamentous bacteria

Fredborg, M., Rosenvinge, F. S., Spillum, E., Kroghsbo, S., Wang, M., & Sondergaard, T. E. (2015).

BMC microbiology, 15(1), 255. 

Rapid antimicrobial susceptibility testing of clinical isolates by digital time-lapse microscopy

Fredborg, M., Rosenvinge, F. S., Spillum, E., Kroghsbo, S., Wang, M., & Sondergaard, T. E. (2015).

European Journal of Clinical Microbiology & Infectious Diseases, 34(12), 2385-2394. 

Extended spectrum β-lactamase-producing E. coli forms filaments as an initial response to cefotaxime treatment

Kjeldsen, T. S., Sommer, M. O., & Olsen, J. E. (2015).

BMC microbiology, 15(1), 63. 

Rational design of Alpha-Helical Antimicrobial Peptides: Dos and Don’ts

Uggerhøj, L. E., Poulsen, T. J., Munk, J. K., Fredborg, M., Sondergaard, T. E., Frimodt‐Moller, N., Hansen, P. R., & Wimmer, R. (2015).

ChemBioChem, 16(2), 242-253. 

A mechanism-based pharmacokinetic/pharmacodynamic model allows prediction of antibiotic killing from MIC values for WT and mutants

Khan, D. D., Lagerbäck, P., Cao, S., Lustig, U., Nielsen, E. I., Cars, O., Hughes, D., Andersson, D. I., & Friberg, L. E. (2015).

Journal of Antimicrobial Chemotherapy, 70(11), 3051-3060. 

2014

Rapidly derived colorectal cancer cultures recapitulate parental cancer characteristics and enable personalized therapeutic assays

Ashley, N., Jones, M., Ouaret, D., Wilding, J., & Bodmer, W. F. (2014).

The Journal of pathology, 234(1), 34-45.  

Complete sequences of IncHI1 plasmids carrying blaCTX-M-1 and qnrS1 in equine Escherichia coli provide new insights into plasmid evolution

Dolejska, M., Villa, L., Minoia, M., Guardabassi, L., & Carattoli, A. (2014)

Journal of Antimicrobial Chemotherapy, 69(9): 2388-93. 

Identification of the Biosynthetic Gene Clusters for the Lipopeptides Fusaristatin A and W493 B in Fusarium graminearum and F. pseudograminearum

Sørensen, J. L., Sondergaard, T. E., Covarelli, L., Fuertes, P. R., Hansen, F. T., Frandsen, R. J. N., Saei, W., Lukassen, M. B., Wimmer, R., Nielsen, K. F., Gardiner, D. M., & Giese, H. (2014)

Journal of natural products, 77(12), 2619-2625. 

2013

Real-time optical antimicrobial susceptibility testing

Fredborg, M., Andersen, K. R., Jørgensen, E., Droce, A., Olesen, T., Jensen, B. B., Rosenvinge, F. S., & Sondergaard, T. E. (2013)

Journal of clinical microbiology, 51(7), 2047-2053.