The Rim pathway mediates antifungal tolerance in Candida albicans through newly identified Rim101 transcriptional targets, including Hsp90 and Ipt1
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ABSTRACT Invasive candidiasis (IC) is a major cause of morbidity and mortality despite antifungal treatment. Azoles and echinocandins are used as first-line therapies for IC. However, their efficacy is limited by yeast tolerance and the emergence of acquired resistance. Tolerance is a reversible stage created due to the yeast's capacity to counter antifungal drug exposure, leading to persistent growth. For Candida albicans , multiple stress signaling pathways have been shown to contribute to this adaptation. Among them, the pH-responsive Rim pathway, through its transcription factor Rim101p, was shown to mediate azole and echinocandin tolerance. The Rim pathway is fungus specific, is conserved among the members of the fungal kingdom, and plays a key role in pathogenesis and virulence. The present study aimed at confirming the role of Rim101p and investigating the implication of the other Rim proteins in antifungal tolerance in C. albicans , as well as the mechanisms underlying it. Time-kill curve experiments and colony formation tests showed that genetic inhibition of all the Rim factors enhances echinocandin and azole antifungal activity. Through RNA sequencing analysis of a rim101 −/− mutant, a strain constitutively overexpressing RIM101 , and control strains, we discovered novel Rim-dependent genes involved in tolerance, including HSP90 , encoding a major molecular chaperone, and IPT1 , involved in sphingolipid biosynthesis. Rim mutants were also hypersensitive to pharmacological inhibition of Hsp90. Taken together, these data suggest that Rim101 acts upstream of Hsp90 and that targeting the Rim pathway in combination with existing antifungal drugs may represent a promising antifungal strategy to indirectly but specifically target Hsp90 in yeasts.
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Transcriptomics and phenotypic analyses demonstrated that all Rim proteins, including RIM9 on ChrR, were important for FLC tolerance.
“Transcriptomics and phenotypic analyses demonstrated that all Rim proteins (including RIM9, on ChrR) were important for FLC tolerance (Garnaud et al. 2018).”
From Acquisition of cross-azole tolerance and aneuploidy in <i>Candida albicans</i> strains evolved to posaconazole (2022) · cites this paper as Garnaud et al. 2018
Hsp90 is involved in azole tolerance as part of the Rim pathway in C. albicans.
“Hsp90 is also involved in azole tolerance as part of the Rim pathway in C. albicans.”
From Molecular and genetic basis of azole antifungal resistance in the opportunistic pathogenic fungus<i>Candida albicans</i> (2020) · cites this paper as [169]
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Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2
Love, M. I., Huber, W., & Anders, S. (2014) · Genome Biology · doi:10.1186/s13059-014-0550-8 · Cited by 95,106 · see citing works
Trimmomatic: a flexible trimmer for Illumina sequence data
Bolger, A. M., Lohse, M., & Usadel, B. (2014) · Bioinformatics · doi:10.1093/bioinformatics/btu170 · Cited by 65,548 · see citing works
Fast gapped-read alignment with Bowtie 2
Langmead, B., & Salzberg, S. L. (2012) · Nature Methods · doi:10.1038/nmeth.1923 · Cited by 56,400 · see citing works
HTSeq—a Python framework to work with high-throughput sequencing data
Anders, S., Pyl, P. T., & Huber, W. (2015) · Bioinformatics · doi:10.1093/bioinformatics/btu638 · Cited by 21,464 · see citing works
Hidden Killers: Human Fungal Infections
Brown, G. D., Denning, D. W., Gow, N. A. R., Levitz, S. M., Netea, M. G., & White, T. C. (2012) · Science Translational Medicine · doi:10.1126/scitranslmed.3004404 · Cited by 4,284 · see citing works
Isogenic strain construction and gene mapping in Candida albicans.
Fonzi, W. A., & Irwin, M. Y. (1993) · Genetics · doi:10.1093/genetics/134.3.717 · Cited by 1,695 · see citing works
Whitesell, L., Mimnaugh, E. G., De Costa, B., Myers, C. E., & Neckers, L. M. (1994) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.91.18.8324 · Cited by 1,444 · see citing works
Kullberg, B. J., & Arendrup, M. C. (2015) · New England Journal of Medicine · doi:10.1056/nejmra1315399 · Cited by 1,315 · see citing works
Pappas, P. G., Kauffman, C. A., Andes, D. R., Clancy, C. J., Marr, K. A., Ostrosky-Zeichner, L., Reboli, A. C., Schuster, M. G., Vazquez, J. A., Walsh, T. J., et al. (2016) · Clinical Infectious Diseases · doi:10.1093/cid/civ1194 · Cited by 1,298 · see citing works
Roe, S. M., Prodromou, C., O'Brien, R., Ladbury, J. E., Piper, P. W., & Pearl, L. H. (1999) · Journal of Medicinal Chemistry · doi:10.1021/jm980403y · Cited by 1,004 · see citing works
Rapid Hypothesis Testing with Candida albicans through Gene Disruption with Short Homology Regions
Wilson, R. B., Davis, D. A., & Mitchell, A. P. (1999) · Journal of Bacteriology · doi:10.1128/jb.181.6.1868-1874.1999 · Cited by 763 · see citing works
Rodríguez-Tudela, J. L., Arendrup, M. C., Barchiesi, F., Billé, J., Chryssanthou, E., Cuenca‐Estrella, M., Dannaoui, É., Denning, D. W., Donnelly, J. P., Dromer, F., et al. (2008) · Clinical Microbiology and Infection · doi:10.1111/j.1469-0691.2007.01935.x · Cited by 651 · see citing works
Parsons, A. B., Brost, R. L., Ding, H., Li, Z., Zhang, C., Sheikh, B., Brown, G. W., Kane, P. M., Hughes, T. R., & Boone, C. M. (2003) · Nature Biotechnology · doi:10.1038/nbt919 · Cited by 651 · see citing works
Arendrup, M. C., Cuenca-Estrella, M., Lass-Flörl, C., & Hope, W. (2012) · Clinical Microbiology and Infection · doi:10.1111/j.1469-0691.2012.03880.x · Cited by 451 · see citing works
Hsp90 Governs Echinocandin Resistance in the Pathogenic Yeast Candida albicans via Calcineurin
Singh, S. D., Robbins, N., Zaas, A. K., Schell, W. A., Perfect, J. R., & Cowen, L. E. (2009) · PLoS Pathogens · doi:10.1371/journal.ppat.1000532 · Cited by 362 · cited 4× · see citing works
“The implication of Hsp90 in antifungal tolerance is known to be mediated by at least two client proteins: calcineurin (Cmp1) and Mkc1 (11, 18, 19).”
BackgroundInfluentialSanglard, D., Ischer, F., Marchetti, O., Entenza, J., & Bille, J. (2003) · Molecular Microbiology · doi:10.1046/j.1365-2958.2003.03495.x · Cited by 350 · see citing works
LaFayette, S. L., Collins, C., Zaas, A. K., Schell, W. A., Betancourt-Quiroz, M., Gunatilaka, A. A. L., Perfect, J. R., & Cowen, L. E. (2010) · PLoS Pathogens · doi:10.1371/journal.ppat.1001069 · Cited by 329 · see citing works
Pachl, J., Svoboda, P., Jacobs, F., Vandewoude, K., van der Hoven, B., Spronk, P., Masterson, G., Malbrain, M., Aoun, M., Garbino, J., et al. (2006) · Clinical Infectious Diseases · doi:10.1086/503428 · Cited by 307 · see citing works
RIM101-Dependent and -Independent Pathways Govern pH Responses in Candida albicans
Davis, D. A., Wilson, R. B., & Mitchell, A. P. (2000) · Molecular and Cellular Biology · doi:10.1128/mcb.20.3.971-978.2000 · Cited by 285 · see citing works
Onyewu, C., Blankenship, J. R., Del Poeta, M., & Heitman, J. (2003) · Antimicrobial Agents and Chemotherapy · doi:10.1128/aac.47.3.956-964.2003 · Cited by 282 · see citing works
Candida albicans RIM101 pH Response Pathway Is Required for Host-Pathogen Interactions
Davis, D. A., Edwards, J. E., Mitchell, A. P., & Ibrahim, A. S. (2000) · Infection and Immunity · doi:10.1128/iai.68.10.5953-5959.2000 · Cited by 276 · see citing works
Hsp90 stress potentiates rapid cellular adaptation through induction of aneuploidy
Chen, G., Bradford, W. D., Seidel, C. W., & Li, R. (2012) · Nature · doi:10.1038/nature10795 · Cited by 274 · see citing works
Bensen, E. S., Martin, S. J., Li, M., Berman, J. G., & Davis, D. A. (2004) · Molecular Microbiology · doi:10.1111/j.1365-2958.2004.04350.x · Cited by 251 · see citing works
Bruno, V. M., Wang, Z., Marjani, S. L., Euskirchen, G. M., Martin, J. V., Sherlock, G. J., & Snyder, M. P. (2010) · Genome Research · doi:10.1101/gr.109553.110 · Cited by 210 · see citing works
Vallabhaneni, S., Cleveland, A. A., Farley, M. M., Harrison, L. H., Schaffner, W., Beldavs, Z. G., Derado, G., Pham, C. D., Lockhart, S. R., & Smith, R. M. (2015) · Open Forum Infectious Diseases · doi:10.1093/ofid/ofv163 · Cited by 187 · see citing works
Davis, D. A., Bruno, V. M., Loza, L., Filler, S. G., & Mitchell, A. P. (2002) · Genetics · doi:10.1093/genetics/162.4.1573 · Cited by 184 · see citing works
How human pathogenic fungi sense and adapt to pH: the link to virulence
Davis, D. A. (2009) · Current Opinion in Microbiology · doi:10.1016/j.mib.2009.05.006 · Cited by 177 · see citing works
Castanheira, M., Messer, S. A., Rhomberg, P. R., & Pfaller, M. A. (2016) · Diagnostic Microbiology and Infectious Disease · doi:10.1016/j.diagmicrobio.2016.02.009 · Cited by 159 · see citing works
Nobile, C. J., Solis, N., Myers, C. L., Fay, A. J., Deneault, J.-S., Nantel, A., Mitchell, A. P., & Filler, S. G. (2008) · Cellular Microbiology · doi:10.1111/j.1462-5822.2008.01198.x · Cited by 150 · see citing works
The Trailing End Point Phenotype in Antifungal Susceptibility Testing Is pH Dependent
Marr, K. A., Rustad, T. R., Rex, J. H., & White, T. C. (1999) · Antimicrobial Agents and Chemotherapy · doi:10.1128/aac.43.6.1383 · Cited by 145 · see citing works
Cell wall integrity signalling in human pathogenic fungi: CWI signalling in pathogenic fungi
Dichtl, K., Samantaray, S., & Wagener, J. (2016) · Cellular Microbiology · doi:10.1111/cmi.12612 · Cited by 144 · see citing works
Hsp90: a chaperone for protein folding and gene regulation
Zhao, R., & Houry, W. A. (2005) · Biochemistry and Cell Biology · doi:10.1139/o05-158 · Cited by 136 · see citing works
Wiederhold, N. P., Kontoyiannis, D. P., Prince, R. A., & Lewis, R. E. (2005) · Antimicrobial Agents and Chemotherapy · doi:10.1128/aac.49.12.5146-5148.2005 · Cited by 131 · see citing works
Defining the frontiers between antifungal resistance, tolerance and the concept of persistence
Delarze, E., & Sanglard, D. (2015) · Drug Resistance Updates · doi:10.1016/j.drup.2015.10.001 · Cited by 118 · see citing works
Fungal Hsp90: a biological transistor that tunes cellular outputs to thermal inputs
Leach, M. D., Klipp, E., Cowen, L. E., & Brown, A. J. P. (2012) · Nature Reviews Microbiology · doi:10.1038/nrmicro2875 · Cited by 107 · see citing works
Candida albicans Rim13p, a Protease Required for Rim101p Processing at Acidic and Alkaline pHs
Li, M., Martin, S. J., Bruno, V. M., Mitchell, A. P., & Davis, D. A. (2004) · Eukaryotic Cell · doi:10.1128/ec.3.3.741-751.2004 · Cited by 100 · see citing works
pH Signaling in Human Fungal Pathogens: a New Target for Antifungal Strategies
Cornet, M., & Gaillardin, C. M. (2014) · Eukaryotic Cell · doi:10.1128/ec.00313-13 · Cited by 99 · see citing works
Self-citationThe fungal Achilles’ heel: targeting Hsp90 to cripple fungal pathogens
Cowen, L. E. (2013) · Current Opinion in Microbiology · doi:10.1016/j.mib.2013.03.005 · Cited by 93 · see citing works
The Hsp90 chaperone network modulates Candida virulence traits
O’Meara, T. R., Robbins, N., & Cowen, L. E. (2017) · Trends in Microbiology · doi:10.1016/j.tim.2017.05.003 · Cited by 92 · see citing works
Rauceo, J. M., Blankenship, J. R., Fanning, S., Hamaker, J. J., Deneault, J., Smith, F. J., Nantel, A., & Mitchell, A. P. (2008) · Molecular Biology of the Cell · doi:10.1091/mbc.e08-02-0191 · Cited by 89 · see citing works
Prasad, T., Saini, P., Gaur, N. A., Vishwakarma, R. A., Khan, L. A., Haq, Q. M. R., & Prasad, R. (2005) · Antimicrobial Agents and Chemotherapy · doi:10.1128/aac.49.8.3442-3452.2005 · Cited by 83 · see citing works
Clinical perspectives on echinocandin resistance among Candida species
Shields, R. K., Nguyen, M. H., & Clancy, C. J. (2015) · Current Opinion in Infectious Diseases · doi:10.1097/qco.0000000000000215 · Cited by 75 · see citing works
Cornet, M., Bidard, F., Schwarz, P., Da Costa, G., Blanchin-Roland, S., Dromer, F., & Gaillardin, C. (2005) · Infection and Immunity · doi:10.1128/iai.73.12.7977-7987.2005 · Cited by 70 · see citing works
Self-citationThe Rpd3/Hda1 family of histone deacetylases regulates azole resistance in <i>Candida albicans</i>
Li, X., Cai, Q., Mei, H., Zhou, X., Shen, Y., Li, D., & Liu, W. (2015) · Journal of Antimicrobial Chemotherapy · doi:10.1093/jac/dkv070 · Cited by 64 · see citing works
Cheng, S., Clancy, C. J., Xu, W., Schneider, F., Hao, B., Mitchell, A. P., & Nguyen, M. H. (2013) · The Journal of Infectious Diseases · doi:10.1093/infdis/jit335 · Cited by 62 · see citing works
Calcineurin signaling: lessons from Candida species
Yu, S.-J., Chang, Y.-L., & Chen, Y. (2015) · FEMS Yeast Research · doi:10.1093/femsyr/fov016 · Cited by 58 · see citing works
O’Meara, T. R., Veri, A. O., Polvi, E. J., Li, X., Valaei, S. F., Diezmann, S., & Cowen, L. E. (2016) · PLoS Genetics · doi:10.1371/journal.pgen.1006142 · Cited by 41 · see citing works
Mitchell, B. M., Wu, T. G., Jackson, B. E., & Wilhelmus, K. R. (2007) · Investigative Ophthalmology & Visual Science · doi:10.1167/iovs.06-0793 · Cited by 38 · see citing works
Gómez‐Raja, J., & Davis, D. A. (2012) · Eukaryotic Cell · doi:10.1128/ec.05211-11 · Cited by 34 · see citing works
Cornet, M., Gaillardin, C. M., & Richard, M. L. (2006) · Antimicrobial Agents and Chemotherapy · doi:10.1128/aac.00391-06 · Cited by 31 · see citing works
Self-citationDelarze, E., Ischer, F., Sanglard, D., & Coste, A. T. (2015) · Virulence · doi:10.1080/21505594.2015.1081330 · Cited by 29 · see citing works
Healey, K. R., Challa, K. K., Edlind, T. D., & Katiyar, S. K. (2015) · Antimicrobial Agents and Chemotherapy · doi:10.1128/aac.04667-14 · Cited by 23 · see citing works
Gigou-Cornet, M. (2006) · HAL (Le Centre pour la Communication Scientifique Directe) · Cited by 1 · see citing works
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- Authors
- Garnaud, C., García-Oliver, E., Wang, Y., Maubon, D., Bailly, S., Despinasse, Q., Champleboux, M., Govin, J., & Cornet, M.
- Affiliations
- Institut polytechnique de Grenoble (FR)
- Inserm (FR)
- ORCID
- Venue
- Antimicrobial Agents and Chemotherapy
- Publisher
- American Society for Microbiology
- Published
- 2018-03
- Volume
- 62
- Issue
- 3
- Pages
- e01785-17
- ISSN
- 0066-4804 (ISSN-L)
- 1098-6596
- PMC
- PMC5826160
- OpenAlex
- W2783406767
- Cited by
- 41
- References
- 53
- Citations by year
- 2026: 3 · 2025: 5 · 2024: 4 · 2023: 9 · 2022: 3 · 2021: 6 · 2020: 9 · 2019: 1 · 2018: 1
- FWCI
- 3.21
- Type
- journal article
- Language
- en
- Open access
- green
- www.ncbi.nlm.nih.gov
- Locations
- Antimicrobial Agents and Chemotherapy (publishedVersion)
- Europe PMC (PubMed Central) (publishedVersion)
- PubMed Central (publishedVersion)
- PubMed (publishedVersion)
- HAL (submittedVersion)
- Funders
- Agence Nationale de la Recherche (ANR-11-PDOC-0011)
- Fondation pour la Recherche Médicale (SPF20140129159)
- Topics
- Health Sciences › Medicine › Infectious Diseases › Antifungal resistance and susceptibility
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Fungal and yeast genetics research
- Health Sciences › Medicine › Epidemiology › Fungal Infections and Studies
- Keywords
- Rim101, Candida albicans, antifungal tolerance, invasive candidiasis, HSP90, sphingolipid biosynthesis, azole resistance, echinocandin resistance, transcription factor target genes
- MeSH terms
- Antifungal Agents, Azoles, Candida albicans, Fungal Proteins, Signal Transduction, HSP90 Heat-Shock Proteins, Echinocandins
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