Unraveling the complexity of fungal drug tolerance at multiple scales of biology

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Links to deliverables and publications from FP7 projects, as well as links to some specific result types such as dataset and software, are dynamically retrieved from OpenAIRE .

Publications

The natural diversity of the yeast proteome reveals chromosome-wide dosage compensation in aneuploids

Author(s): Julia Muenzner, Pauline Trébulle, Federica Agostini, Christoph B. Messner, Martin Steger, Andrea Lehmann, Elodie Caudal, Anna-Sophia Egger, Fatma Amari, Natalie Barthel, Matteo De Chiara, Michael Mülleder, Vadim Demichev, Gianni Liti, Joseph Schacherer, Toni Gossmann, Judith Berman, Markus Ralser
Published in: bioRxiv -, 2022
Publisher: Biorxiv
DOI: 10.1101/2022.04.06.487392

Inorganic sulfur fixation via a new homocysteine synthase allows yeast cells to cooperatively compensate for methionine auxotrophy

Author(s): Jason S.L. Yu, Benjamin M. Heineike, Johannes Hartl, Clara Correia-Melo, Simran Kaur Aulakh, Andrea Lehmann, Oliver Lemke, Federica Agostini, Cory T. Lee, Vadim Demichev, Christoph B. Messner, Michael Mülleder, Markus Ralser
Published in: bioRxiv -, 2022
Publisher: Biorxiv
DOI: 10.1101/2022.03.14.484209

The Proteomic Landscape of Genome-Wide Genetic Perturbations

Author(s): Christoph B. Messner, Vadim Demichev, Julia Muenzner, Simran Aulakh, Annika Röhl, Lucía Herrera-Domínguez, Anna-Sophia Egger, Stephan Kamrad, Oliver Lemke, Enrica Calvani, Michael Mülleder, Kathryn S. Lilley, Georg Kustatscher, Markus Ralser
Published in: bioRxiv -, 2022
Publisher: Biorxiv
DOI: 10.1101/2022.05.17.492318

High-throughput proteomics of nanogram-scale samples with Zeno SWATH DIA

Author(s): Ziyue Wang, Michael Mülleder, Ihor Batruch, Anjali Chelur, Kathrin Textoris-Taube, Torsten Schwecke, Johannes Hartl, Jason Causon, Jose Castro-Perez, Vadim Demichev, Stephen Tate, Markus Ralser
Published in: bioRxiv -, 2022
Publisher: Biorxiv
DOI: 10.1101/2022.04.14.488299

Species-wide quantitative transcriptomes and proteomes reveal distinct genetic control of gene expression variation in yeast

Author(s): E. Teyssonnière, P. Trébulle, J. Muenzner, V. Loegler, D. Ludwig, F. Amari, M. Mülleder, A. Friedrich, J. Hou, M. Ralser, J. Schacherer
Published in: 2023
Publisher: Cold Spring Harbor Laboratory
DOI: 10.1101/2023.09.18.558197

A genome-to-proteome atlas charts natural variants controlling proteome diversity and forecasts their fitness effects

Author(s): Christopher M. Jakobson, Johannes Hartl, Pauline Trébulle, Michael Mülleder, Daniel F. Jarosz, Markus Ralser
Published in: 2024
Publisher: Cold Spring Harbor Laboratory
DOI: 10.1101/2024.10.18.619054

The GAPDH redox switch safeguards reductive capacity and enables survival of stressed tumour cells

Author(s): Talwar D, Miller CG, Grossmann J, Szyrwiel L, Schwecke T, Demichev V, Drazic AM, Mayakonda A, Lutsik P, Veith C, Milsom MD, Müller-Decker K, Mülleder M, Ralser M, Dick TP.
Published in: Naturemetabolism, Issue 5, 2023, Page(s) 660–676, ISSN 2522-5812
Publisher: Nature
DOI: 10.1038/s42255-023-00781-3

Antifungal Tolerance and Resistance Emerge at Distinct Drug Concentrations and Rely upon Different Aneuploid Chromosomes

Author(s): Feng Yang, Eduardo F. C. Scopel, Hao Li, Liu-liu Sun, Nora Kawar, Yong-bing Cao, Yuan-Ying Jiang, Judith Berman
Published in: mBio, Issue 14, 2024, ISSN 2150-7511
Publisher: American Society for Microbiology
DOI: 10.1128/mbio.00227-23

Reshaping Echinocandin Antifungal Drugs To Circumvent Glucan Synthase Point‐Mutation‐Mediated Resistance

Author(s): Moriah Jospe‐Kaufman; Efrat Ben‐Zeev; Austin Mottola; Anna Dukhovny; Judith Berman; Shmuel Carmeli; Micha Fridman
Published in: Wiley online library, 2023, ISSN 1615-9853
Publisher: John Wiley & Sons Ltd.
DOI: 10.1002/anie.202314728

Interkingdom interactions between Pseudomonas aeruginosa and Candida albicans affect clinical outcomes and antimicrobial responses

Author(s): Kahl LJ, Stremmel N, Esparza-Mora MA, Wheatley RM, MacLean RC, Ralser M.
Published in: Elsevier, 2023, ISSN 0959-437X
Publisher: Elsevier BV
DOI: 10.1016/j.mib.2023.102368

Increasing the throughput of sensitive proteomics by plexDIA

Author(s): Jason Derks, Andrew Leduc, Georg Wallmann, R. Gray Huffman, Matthew Willetts, Saad Khan, Harrison Specht, Markus Ralser, Vadim Demichev & Nikolai Slavov
Published in: Nature Biotechnology, Issue 15461696, 2022, ISSN 1546-1696
Publisher: Nature Biotechnology
DOI: 10.1038/s41587-022-01389-w

Quantitative protein biomarker panels: a path to improved clinical practice through proteomics

Author(s): Hartl J, Kurth F, Kappert K, Horst D, Mülleder M, Hartmann G, Ralser M.
Published in: EMBO Molecular Medicine, 2023, ISSN 1757-4684
Publisher: EMBO
DOI: 10.15252/emmm.202216061

Oxonium ion scanning mass spectrometry for large-scale plasma glycoproteomics

Author(s): White MEH, Sinn LR, Jones DM, de Folter J, Aulakh SK, Wang Z, Flynn HR, Krüger L, Tober-Lau P, Demichev V, Kurth F, Mülleder M, Blanchard V, Messner CB, Ralser M.
Published in: Nature Biomedical Engineering, 2024, ISSN 2157-846X
Publisher: Nature
DOI: 10.1038/s41551-023-01067-5

The importance of antimicrobial resistance in medical mycology

Author(s): Neil A. R. Gow, Carolyn Johnson, Judith Berman, Alix T. Coste, Christina A. Cuomo, David S. Perlin, Tihana Bicanic, Thomas S. Harrison, Nathan Wiederhold, Mike Bromley, Tom Chiller & Keegan Edgar
Published in: Getting acquainted with npj Antimicrobials and Resistance, 2022, ISSN 2041-1723
Publisher: Nature Publishing Group

Fast proteomics with dia‐PASEF and analytical flow‐rate chromatography

Author(s): Lukasz Szyrwiel; Christoph Gille; Michael Mülleder; Vadim Demichev; Markus Ralser
Published in: Proteomics, 2023, ISSN 1615-9853
Publisher: John Wiley & Sons Ltd.
DOI: 10.1002/pmic.202300100

The Metabolism of Susceptibility: Clearing the FoG Between Tolerance and Resistance in Candida albicans

Author(s): Marina Druseikis, Austin Mottola, Judith Berman
Published in: Current Clinical Microbiology Reports, Issue 10, 2024, Page(s) 36-46, ISSN 2196-5471
Publisher: Springer Science and Business Media LLC
DOI: 10.1007/s40588-023-00189-3

The Impact of Acute Nutritional Interventions on the Plasma Proteome

Author(s): Spyros I Vernardis; Vadim Demichev; Oliver Lemke; Nana-Maria Grüning; Christoph Messner; Matt White; Maik Pietzner; Alina Peluso; Tinh-Hai Collet; Elana Henning; Christoph Gille; Archie Campbell; Caroline Hayward; David J Porteous; Riccardo E Marioni; Michael Mülleder; Aleksej Zelezniak; Nicholas J Wareham; Claudia Langenberg; I Sadaf Farooqi; Markus Ralser
Published in: The Journal of clinical endocrinology and metabolism, vol. 108, no. 8 (2023) p. 2087-2098, Issue 4, 2023, ISSN 0021-972X
Publisher: The Endocrine Society

Metabolic exchanges are ubiquitous in natural microbial communities

Author(s): Kost C, Patil KR, Friedman J, Garcia SL, Ralser M.
Published in: Nature Microbiology, 2023, ISSN 2058-5276
Publisher: Nature Nicrobiology
DOI: 10.1038/s41564-023-01511-x

Integration of protein context improves protein-based COVID-19 patient stratification

Author(s): Jinlong Gao, Jiale He, Fangfei Zhang, Qi Xiao, Xue Cai, Xiao Yi, Siqi Zheng, Ying Zhang, Donglian Wang, Guangjun Zhu, Jing Wang, Bo Shen, Markus Ralser, Tiannan Guo, Yi Zhu
Published in: Clinical Proteomics, Issue 19, 2022, ISSN 1542-6416
Publisher: Humana Press, Inc.
DOI: 10.1186/s12014-022-09370-0

Dynamic cytoplasmic fluidity during morphogenesis in a human fungal pathogen

Author(s): A. Serrano, C. Puerner, E. Plumb, L. Chevalier, J. Elferich, L.R. Sinn, N. Grigorieff, M. Ralser, M. Delarue, M. Bassilana, R.A. Arkowitz
Published in: Nature Microbiology, 2024, ISSN 2058-5276
Publisher: Cold Spring Harbor Laboratory
DOI: 10.1101/2024.11.16.623909

Inorganic sulfur fixation via a new homocysteine synthase allows yeast cells to cooperatively compensate for methionine auxotrophy

Author(s): Yu JSL, Heineike BM, Hartl J, Aulakh SK, Correia-Melo C, Lehmann A, Lemke O, Agostini F, Lee CT, Demichev V, Messner CB, Mülleder M, Ralser M.
Published in: PLOS Biology, 2022, ISSN 1544-9173
Publisher: Public Library of Science
DOI: 10.1371/journal.pbio.3001912

Natural proteome diversity links aneuploidy tolerance to protein turnover

Author(s): Julia Muenzner, Pauline Trébulle, Federica Agostini, Henrik Zauber, Christoph B. Messner, Martin Steger, Christiane Kilian, Kate Lau, Natalie Barthel, Andrea Lehmann, Kathrin Textoris-Taube, Elodie Caudal, Anna-Sophia Egger, Fatma Amari, Matteo De Chiara, Vadim Demichev, Toni I. Gossmann, Michael Mülleder, Gianni Liti, Joseph Schacherer, Matthias Selbach, Judith Berman, Markus Ralser
Published in: Nature, Issue 630, 2024, Page(s) 149-157, ISSN 0028-0836
Publisher: Nature Publishing Group
DOI: 10.1038/s41586-024-07442-9

A time-resolved proteomic and prognostic map of COVID-19

Author(s): Vadim Demichev, Pinkus Tober-Lau, Oliver Lemke, Tatiana Nazarenko, Charlotte Thibeault, Harry Whitwell, Annika Röhl, Anja Freiwald, Lukasz Szyrwiel, Daniela Ludwig, Clara Correia-Melo, Simran Kaur Aulakh, Elisa T. Helbig, Paula Stubbemann, Lena J. Lippert, Nana-Maria Grüning, Oleg Blyuss, Spyros Vernardis, Matthew White, Christoph B. Messner, Michael Joannidis, Thomas Sonnweber, Sebastian J. Kle
Published in: Cell Systems, Issue 12, 2024, Page(s) 780-794.e7, ISSN 2405-4712
Publisher: Cell Press
DOI: 10.1016/j.cels.2021.05.005

The proteomic landscape of genome-wide genetic perturbations

Author(s): Messner, Christoph B; Demichev, Vadim; Muenzner, Julia; Aulakh, Simran K; Barthel, Natalie; Röhl, Annika; Herrera-Domínguez, Lucía; Egger, Anna-Sophia; Kamrad, Stephan; Hou, Jing; Tan, Guihong; Lemke, Oliver; Calvani, Enrica; Szyrwiel, Lukasz; Mülleder, Michael; Lilley, Kathryn S; Boone, Charles; Kustatscher, Georg; Ralser, Markus
Published in: CELL, Issue 186, 2023, ISSN 0092-8674
Publisher: Cell Press
DOI: 10.1016/j.cell.2023.03.026

Spontaneously established syntrophic yeast communities improve bioproduction

Author(s): Simran Kaur Aulakh, Lara Sellés Vidal, Eric J. South, Huadong Peng, Sreejith Jayasree Varma, Lucia Herrera-Dominguez, Markus Ralser, Rodrigo Ledesma-Amaro
Published in: Nature Chemical Biology, Issue 19, 2023, Page(s) 951-961, ISSN 1552-4450
Publisher: Nature Publishing Group
DOI: 10.1038/s41589-023-01341-2

Beyond resistance: antifungal heteroresistance and antifungal tolerance in fungal pathogens

Author(s): Feng Yang; Judith Berman
Published in: Elsevier Current Opinion in Microbiology, 2023, ISSN 0959-437X
Publisher: Elsevier BV
DOI: 10.1016/j.mib.2024.102439

An orthologous gene coevolution network provides insight into eukaryotic cellular and genomic structure and function

Author(s): Jacob L. Steenwyk, Megan A. Phillips, Feng Yang, Swapneeta S. Date, Todd R. Graham, Judith Berman, Chris Todd Hittinger, Antonis Rokas
Published in: Science Advances, Issue 8, 2024, ISSN 2375-2548
Publisher: Science Advances
DOI: 10.1126/sciadv.abn0105

A live-cell ergosterol reporter for visualization of the effects of fluconazole on the human fungal pathogen Candida albicans

Author(s): Antonio Serrano , Miguel A Basante-Bedoya, Martine Bassilan, Robert A Arkowitz
Published in: mBio, Issue Nov 30;14(6), 2023, ISSN 2150-7511
Publisher: American Society of Microbiology

The importance of antimicrobial resistance in medical mycology

Author(s): Neil A. R. Gow, Carolyn Johnson, Judith Berman, Alix T. Coste, Christina A. Cuomo, David S. Perlin, Tihana Bicanic, Thomas S. Harrison, Nathan Wiederhold, Mike Bromley, Tom Chiller, Keegan Edgar
Published in: Nature Communications, Issue 13, 2023, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-022-32249-5

The metabolic growth limitations of petite cells lacking the mitochondrial genome

Author(s): Jakob Vowinckel, Johannes Hartl, Hans Marx, Martin Kerick, Kathrin Runggatscher, Markus A. Keller, Michael Mülleder, Jason Day, Manuela Weber, Mark Rinnerthaler, Jason S. L. Yu, Simran Kaur Aulakh, Andrea Lehmann, Diethard Mattanovich, Bernd Timmermann, Nianshu Zhang, Cory D. Dunn, James I. MacRae, Michael Breitenbach & Markus Ralser
Published in: Nature Metabolism, Issue 25225812, 2021, ISSN 2522-5812
Publisher: Nat. Metab.
DOI: 10.1038/s42255-021-00477-6

dia-PASEF data analysis using FragPipe and DIA-NN for deep proteomics of low sample amounts

Author(s): Vadim Demichev, Lukasz Szyrwiel, Fengchao Yu, Guo Ci Teo, George Rosenberger, Agathe Niewienda, Daniela Ludwig, Jens Decker, Stephanie Kaspar-Schoenefeld, Kathryn S. Lilley, Michael Mülleder, Alexey I. Nesvizhskii & Markus Ralser
Published in: Nature Communications, Issue 20411723, 2022, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-022-31492-0

The human host response to monkeypox infection: a proteomic case series study

Author(s): Ziyue Wang, Pinkus Tober-Lau, ..., Markus Ralser, Florian Kurth
Published in: EMBO Molecular Medicine, 2022, ISSN 1757-4684
Publisher: EMBO Press
DOI: 10.15252/emmm.202216643

Human aneuploid cells depend on the RAF/MEK/ERK pathway for overcoming increased DNA damage

Author(s): Johanna Zerbib, Marica Rosaria Ippolito, Yonatan Eliezer, Giuseppina De Feudis, Eli Reuveni, Anouk Savir Kadmon, Sara Martin, Sonia Viganò, Gil Leor, James Berstler, Julia Muenzner, Michael Mülleder, Emma M. Campagnolo, Eldad D. Shulman, Tiangen Chang, Carmela Rubolino, Kathrin Laue, Yael Cohen-Sharir, Simone Scorzoni, Silvia Taglietti, Alice Ratti, Chani Stossel, Talia Golan, Francesco Nicassio
Published in: Nature Communications, Issue 15, 2024, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-024-52176-x

High-throughput proteomics of nanogram-scale samples with Zeno SWATH MS

Author(s): Wang Z, Mülleder M, Batruch I, Chelur A, Textoris-Taube K, Schwecke T, Hartl J, Causon J, Castro-Perez J, Demichev V, Tate S, Ralser M.
Published in: eLife, 2022, ISSN 2050-084X
Publisher: eLife Sciences Publications
DOI: 10.7554/elife.83947

Metal ion availability and homeostasis as drivers of metabolic evolution and enzyme function

Author(s): Aulakh SK, Varma SJ, Ralser M.
Published in: Science Direct, 2022, ISSN 1879-0380
Publisher: Elsevier
DOI: 10.1016/j.gde.2022.101987

Reshaping Echinocandin Antifungal Drugs To Circumvent Glucan Synthase Point-Mutation-Mediated Resistance

Author(s): Moriah Jospe-Kaufman, Dr. Efrat Ben-Zeev, Dr. Austin Mottola, Dr. Anna Dukhovny, Prof. Judith Berman, Prof. Shmuel Carmeli, Prof. Micha Fridman
Published in: NA, 2024, ISSN 1521-3773
Publisher: Agwandte Chemie

Tackling the emerging threat of antifungal resistance to human health

Author(s): Matthew C. Fisher, Ana Alastruey-Izquierdo, Judith Berman, Tihana Bicanic, Elaine M. Bignell, Paul Bowyer, Michael Bromley, Roger Brüggemann, Gary Garber, Oliver A. Cornely, Sarah. J. Gurr, Thomas S. Harrison, Ed Kuijper, Johanna Rhodes, Donald C. Sheppard, Adilia Warris, P. Lewis White, Jianping Xu, Bas Zwaan & Paul E. Verweij
Published in: Nature Reviews Microbiology, Issue 17401534, 2022, ISSN 1740-1534
Publisher: Nature
DOI: 10.1038/s41579-022-00720-1

Tunicamycin Potentiates Antifungal Drug Tolerance via Aneuploidy in Candida albicans

Author(s): Feng Yang, Vladimir Gritsenko, Yaniv Slor Futterman, Lu Gao, Cheng Zhen, Hui Lu, Yuan-ying Jiang jiangyy@tongji.edu.cn, Judith Berman
Published in: mBio, Issue 21507511, 2021, ISSN 2150-7511
Publisher: ASM Journals
DOI: 10.1128/mbio.02272-21

Microbial communities form rich extracellular metabolomes that foster metabolic interactions and promote drug tolerance

Author(s): Jason S. L. Yu, Clara Correia-Melo, Francisco Zorrilla, Lucia Herrera-Dominguez, Mary Y. Wu, Johannes Hartl, Kate Campbell, Sonja Blasche, Marco Kreidl, Anna-Sophia Egger, Christoph B. Messner, Vadim Demichev, Anja Freiwald, Michael Mülleder, Michael Howell, Judith Berman, Kiran R. Patil, Mohammad Tauqeer Alam & Markus Ralser
Published in: Nature Microbiology, Issue 20585276, 2022, ISSN 2058-5276
Publisher: Nat Microbiol
DOI: 10.1038/s41564-022-01072-5

Metabolic sensing tips the balance of drug tolerance in fungal meningitis

Author(s): Mottola A, Hartl J, Ralser M, Berman J.
Published in: Nature Microbiology, 2024, ISSN 2058-5276
Publisher: Nature
DOI: 10.1038/s41564-023-01595-5

The impact of phenotypic heterogeneity on fungal pathogenicity and drug resistance

Author(s): Lukasz Kozubowski, Judith Berman
Published in: FEMS Microbiology Reviews, Issue 49, 2025, ISSN 1574-6976
Publisher: FEMS Microbiology Review
DOI: 10.1093/femsre/fuaf001

A multiplex protein panel assay for severity prediction and outcome prognosis in patients with COVID-19: An observational multi-cohort study

Author(s): Ziyue Wang, Adam Cryar, Oliver Lemke, Pinkus Tober-Lau, Daniela Ludwig, Elisa Theresa Helbig, Stefan Hippenstiel, Leif-Erik Sander, Daniel Blake, Catherine S. Lane, Rebekah L. Sayers, Christoph Mueller, Johannes Zeiser, StJohn Townsend, Vadim Demichev, Michael Mülleder, Florian Kurth, Ernestas Sirka, Johannes Hartl, Markus Ralser
Published in: eClinicalMedicine, Issue 49, 2023, Page(s) 101495, ISSN 2589-5370
Publisher: Elsevier
DOI: 10.1016/j.eclinm.2022.101495

The Impact of Acute Nutritional Interventions on the Plasma Proteome

Author(s): Spyros I Vernardis, Vadim Demichev, Oliver Lemke, Nana-Maria Grüning, Christoph Messner, Matt White, Maik Pietzner, Alina Peluso, Tinh-Hai Collet, Elana Henning, Christoph Gille, Archie Campbell, Caroline Hayward, David J Porteous, Riccardo E Marioni, Michael Mülleder, Aleksej Zelezniak, Nicholas J Wareham, Claudia Langenberg, I Sadaf Farooqi, Markus Ralser
Published in: The Journal of Clinical Endocrinology & Metabolism, Issue 108, 2023, Page(s) 2087-2098, ISSN 0021-972X
Publisher: The Endocrine Society
DOI: 10.1210/clinem/dgad031

Beyond resistance: antifungal heteroresistance and antifungal tolerance in fungal pathogens

Author(s): Feng Yang, Judith Berman
Published in: Current Opinion in Microbiology, Issue 78, 2024, Page(s) 102439, ISSN 1369-5274
Publisher: Elsevier BV
DOI: 10.1016/j.mib.2024.102439

Step-wise evolution of azole resistance through copy number variation followed by KSR1 loss of heterozygosity in Candida albicans

Author(s): Pétra Vande Zande, Cécile Gautier, Nora Kawar, Corinne Maufrais, Katura Metzner, Elizabeth Wash, Annette K. Beach, Ryan Bracken, Eli Isael Maciel, Nívea Pereira de Sá, Caroline Mota Fernandes, Norma V. Solis, Maurizio Del Poeta, Scott G. Filler, Judith Berman, Iuliana V. Ene, Anna Selmecki
Published in: PLOS Pathogens, Issue 20, 2024, Page(s) e1012497, ISSN 1553-7374
Publisher: PLOS
DOI: 10.1371/journal.ppat.1012497

Phylogenomics reveals extensive misidentification of fungal strains from the genus <i>Aspergillus</i>

Author(s): Jacob L. Steenwyk, Charu Balamurugan, Huzefa A. Raja, Carla Gonçalves, Ningxiao Li, Frank Martin, Judith Berman, Nicholas H. Oberlies, John G. Gibbons, Gustavo H. Goldman, David M. Geiser, Jos Houbraken, David S. Hibbett, Antonis Rokas
Published in: Microbiology Spectrum, Issue 12, 2024, ISSN 2165-0497
Publisher: Microbiology Spectrum
DOI: 10.1128/spectrum.03980-23

Cell-cell metabolite exchange creates a pro-survival metabolic environment that extends lifespan

Author(s): Correia-Melo C, Kamrad S, Tengölics R, Messner CB, Trebulle P, Townsend SJ, Varma SJ, Freiwald A, Heineike BM, Campbell K, Herrera-Dominguez L, Aulakh SK, Szyrwiel L, Yu JSL, Zelezniak A, Demichev V, Mülleder M, Papp B, Alam MT, Ralser M.
Published in: Cell Volume 186, Issue 186, 2023, ISSN 0092-8674
Publisher: Cell Press
DOI: 10.1016/j.cell.2022.12.007

Candida albicans exhibits heterogeneous and adaptive cytoprotective responses to antifungal compounds

Author(s): Vanessa DumeauxSamira MassahiVan BettauerAustin MottolaAnna DukovnySanny Singh KhurdiaAnna Carolina Borges Pereira CostaRaha Parvizi OmranShawn SimpsonJinglin Lucy XieMalcolm WhitewayJudith BermanMichael T Hallett
Published in: Computational and Systems Biology, Microbiology and Infectious Disease, 2023, ISSN 2050-084X
Publisher: eLife Sciences Publications

Antifungal Tolerance and Resistance Emerge at Distinct Drug Concentrations and Rely upon Different Aneuploid Chromosomes

Author(s): Feng Yang https://orcid.org/0000-0003-2363-0745, Eduardo F. C. Scopel https://orcid.org/0000-0002-0064-3466, Hao Li, Liu-liu Sun, Nora Kawar, Yong-bing Cao, Yuan-Ying Jiang jiangyy@tongji.edu.cn, Judith Berman
Published in: ASM Journals, 2024, ISSN 2379-5077
Publisher: ASM Journals

Mass spectrometry-based high-throughput proteomics and its role in biomedical studies and systems biology

Author(s): Messner CB, Demichev V, Wang Z, Hartl J, Kustatscher G, Mülleder M, Ralser M.
Published in: Proteomics, 2022, ISSN 1615-9853
Publisher: John Wiley & Sons Ltd.
DOI: 10.1002/pmic.202200013

The future of fungi: threats and opportunities

Author(s): Nicola T Case, Judith Berman, David S Blehert, Robert A Cramer, Christina Cuomo, Cameron R Currie, Iuliana V Ene, Matthew C Fisher, Lillian K Fritz-Laylin, Aleeza C Gerstein, N Louise Glass, Neil A R Gow, Sarah J Gurr, Chris Todd Hittinger, Tobias M Hohl, Iliyan D Iliev, Timothy Y James, Hailing Jin, Bruce S Klein, James W Kronstad, Jeffrey M Lorch, Victoria McGovern, Aaron P Mitchell, Julia A Seg
Published in: G3, 2022, ISSN 2160-1836
Publisher: Genetics Society of America

Collateral sensitivity counteracts the evolution of antifungal drug resistance in Candida auris

Author(s): Hans Carolus, Dimitrios Sofras, Giorgio Boccarella, Stef Jacobs, Vladislav Biriukov, Louise Goossens, Alicia Chen, Ina Vantyghem, Tibo Verbeeck, Siebe Pierson, Celia Lobo Romero, Hans Steenackers, Katrien Lagrou, Pieter van den Berg, Judith Berman, Toni Gabaldón, Patrick Van Dijck
Published in: Nature Microbiology, Issue 9, 2024, Page(s) 2954-2969, ISSN 2058-5276
Publisher: Nature Microbiology
DOI: 10.1038/s41564-024-01811-w

Microbial communities form rich extracellular metabolomes that foster metabolic interactions and promote drug tolerance.

Author(s): Jason S. L. Yu; Clara Correia-Melo; Francisco Zorrilla; Lucia Herrera-Dominguez; Mary Y. Wu; Johannes Hartl; Kate Campbell; Sonja Blasche; Marco Kreidl; Anna-Sophia Egger; Christoph B. Messner; Vadim Demichev; Anja Freiwald; Michael Mülleder; Michael Howell; Judith Berman; Kiran R. Patil; Mohammad Tauqeer Alam; Markus Ralser
Published in: Nature Microbiology, Issue 4, 2022, Page(s) pages542–555, ISSN 2058-5276
Publisher: NPG
DOI: 10.17863/cam.83116

Metabolic heterogeneity and cross-feeding within isogenic yeast populations captured by DILAC

Author(s): Kamrad S, Correia-Melo C, Szyrwiel L, Aulakh SK, Bähler J, Demichev V, Mülleder M, Ralser M.
Published in: Nature Microbiology, 2023, ISSN 1087-0156
Publisher: Nature Publishing Group
DOI: 10.1038/s41564-022-01304-8

Protocols for Measuring Tolerant and Heteroresistant Drug Responses of Pathogenic Yeasts

Author(s): Naomi Lyons, Judith Berman
Published in: Methods in Molecular Biology, Antifungal Drug Resistance, 2023, Page(s) 67-79
Publisher: Springer US
DOI: 10.1007/978-1-0716-3155-3_6

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