Evidence map›Paper›PMID 39095599›Full record

ArticleNature medicine2024

Antifungal heteroresistance causes prophylaxis failure and facilitates breakthrough Candida parapsilosis infections.

Bing Zhai, Chen Liao, Siddharth Jaggavarapu, Yuanyuan Tang, Thierry Rolling, Yating Ning, Tianshu Sun, Sean A Bergin, Mergim Gjonbalaj, Edwin Miranda and 8 more

Abstract read
In one paragraph

Article in Nature medicine, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 37 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
37citing papers in PubMed, 1 pooled it
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

37 citing papers in PubMed, 1 synthesis or guideline pooled it.

  1. Pooled it
  2. Review
  3. Article
  4. Innovation in antifungal therapy.EMBO molecular medicine · 2026
    Review
  5. Article
  6. Article
  7. Article
  8. Article
  9. Review
  10. Review
  11. Review
  12. Article
  13. Article
  14. Review
  15. Infection and immunity · 2025
    Review
  16. Review
  17. Clinical impact of fluconazole-resistantFuture microbiology · 2025
    Review
  18. Review
  19. Antimicrobial agents and chemotherapy · 2025
    Article
  20. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

18 authors.

Bing Zhai *Key Laboratory of Quantitative Synthetic Biology, Shenzhen Institute of Synthetic Biology, Shenzhen Institute of Advanced Technology, Chinese Academy of Sciences, Shenzhen, China. bing.zhai@siat.ac.cn.ORCID http://orcid.org/0000-0001-6571-7465
Chen Liao *Computational and Systems Biology Program, Sloan Kettering Institute, Memorial Sloan Kettering Cancer Center, New York, NY, USA.ORCID http://orcid.org/0000-0001-8474-1196
Siddharth Jaggavarapu *Emory Antibiotic Resistance Center, Atlanta, GA, USA.
Yuanyuan Tang *Key Laboratory of Quantitative Synthetic Biology, Shenzhen Institute of Synthetic Biology, Shenzhen Institute of Advanced Technology, Chinese Academy of Sciences, Shenzhen, China.
Thierry RollingInfectious Disease Service, Department of Medicine, Memorial Sloan Kettering Cancer Center, New York, NY, USA.
Yating NingDepartment of Laboratory Medicine, State Key Laboratory of Complex Severe and Rare Diseases, Peking Union Medical College Hospital, Chinese Academy of Medical Sciences, Beijing, China.
Tianshu SunBeijing Key Laboratory for Mechanisms Research and Precision Diagnosis of Invasive Fungal Diseases, Beijing, China.
Sean A BerginSchool of Biomolecular and Biomedical Science, Conway Institute, University College Dublin, Belfield, Dublin, Ireland.
Mergim GjonbalajInfectious Disease Service, Department of Medicine, Memorial Sloan Kettering Cancer Center, New York, NY, USA.
Edwin MirandaClinical Microbiology Service, Department of Laboratory Medicine, Memorial Sloan Kettering Cancer Center, New York, NY, USA.
N Esther BabadyInfectious Disease Service, Department of Medicine, Memorial Sloan Kettering Cancer Center, New York, NY, USA.
Oliver BaderInstitute for Medical Microbiology and Virology, University Medical Center Göttingen, Göttingen, Germany.ORCID http://orcid.org/0000-0002-1534-440X
Ying TaurInfectious Disease Service, Department of Medicine, Memorial Sloan Kettering Cancer Center, New York, NY, USA.ORCID http://orcid.org/0000-0002-6601-8284
Geraldine ButlerSchool of Biomolecular and Biomedical Science, Conway Institute, University College Dublin, Belfield, Dublin, Ireland.ORCID http://orcid.org/0000-0002-1770-5301
Li ZhangDepartment of Laboratory Medicine, State Key Laboratory of Complex Severe and Rare Diseases, Peking Union Medical College Hospital, Chinese Academy of Medical Sciences, Beijing, China.
Joao B XavierComputational and Systems Biology Program, Sloan Kettering Institute, Memorial Sloan Kettering Cancer Center, New York, NY, USA.ORCID http://orcid.org/0000-0003-3592-1689
David S WeissEmory Antibiotic Resistance Center, Atlanta, GA, USA. david.weiss@emory.edu.ORCID http://orcid.org/0000-0003-0980-7866
Tobias M HohlInfectious Disease Service, Department of Medicine, Memorial Sloan Kettering Cancer Center, New York, NY, USA. hohlt@mskcc.org.ORCID http://orcid.org/0000-0002-9097-5412

Funding

X-RAY CRYSTALLOGRAPHYP30CA008748 · NCI · SLOAN-KETTERING INSTITUTE FOR CANCER RES · PI SELWYN M VICKERS · 1985 to 2026
$347.4M
Single Cell Analysis Core (Core C)U19AI158080 · NIAID · EMORY UNIVERSITY · PI LEVIN, BRUCE RICHARD, WEISS, DAVID S · 2021 to 2025
$10.9M
Understanding the molecular mechanisms regulating fungal colonization and disease in the mammalian intestinal nicheP01AI179406 · NIAID · SLOAN-KETTERING INST CAN RESEARCH · PI TOBIAS M HOHL · 2024 to 2026
$9.9M
Systems Biology of Microbiome-mediated Resilience to Antibiotic-resistant PathogensU01AI124275 · NIAID · SLOAN-KETTERING INST CAN RESEARCH · PI PAMER, ERIC G., XAVIER, JOAO · 2016 to 2020
$8.9M
INITIATION OF THE IMMUNE RESPONSE TO ASPERGILLUS FUMIGATUSR37AI093808 · NIAID · SLOAN-KETTERING INST CAN RESEARCH · PI TOBIAS M HOHL · 2021 to 2026
$4.2M
Exploitation of multiple heteroresistance for effective antibiotic combination therapyR01AI148661 · NIAID · EMORY UNIVERSITY · PI WEISS, DAVID S · 2020 to 2024
$4.0M
Mathematical ecology models of host-microbiota interaction in auto microbiota transplants (auto-FMT)R01AI137269 · NIAID · SLOAN-KETTERING INST CAN RESEARCH · PI TAUR, YING, XAVIER, JOAO · 2019 to 2023
$3.8M
Antifungal Immunity and the Mechanism of Fungal Programmed Cell DeathR01AI139632 · NIAID · SLOAN-KETTERING INST CAN RESEARCH · PI CRAMER, ROBERT ANDREW, HOHL, TOBIAS M · 2019 to 2023
$3.3M
Mechanisms of phenotypic antibiotic resistance in Gram-negative bacteriaR01AI141883 · NIAID · EMORY UNIVERSITY · PI WEISS, DAVID S · 2018 to 2022
$2.2M
The mycobiota, bone marrow transplantation, and clinical outcomesR21AI156157 · NIAID · SLOAN-KETTERING INST CAN RESEARCH · PI HOHL, TOBIAS M · 2021 to 2022
$487k
Dissection of Macrophage Antifungal Activity against Aspergillus fumigatusR21AI105617 · NIAID · SLOAN-KETTERING INST CAN RESEARCH · PI HOHL, TOBIAS M · 2013 to 2014
$473k
Unraveling the ecology of intestinal fungal expansion in immunocompromised patients through computational modeling and machine learningR00AI175599 · NIAID · DARTMOUTH COLLEGE · PI LIAO, CHEN · 2025 to 2025
$247k
Chinese Academy of Medical Sciences (CAMS) 2021-I2M-1-044Deutsche Forschungsgemeinschaft (German Research Foundation) RO-5328/1-2NCI NIH HHS P30 CA008748NIAID NIH HHS K99 AI175599NIAID NIH HHS P01 AI179406NIAID NIH HHS R00 AI175599NIAID NIH HHS R01 AI137269NIAID NIH HHS R01 AI139632NIAID NIH HHS R01 AI141883NIAID NIH HHS R01 AI148661NIAID NIH HHS R21 AI105617NIAID NIH HHS R21 AI156157NIAID NIH HHS R37 AI093808NIAID NIH HHS U01 AI124275NIAID NIH HHS U19 AI158080Science Foundation Ireland (SFI) 18/CRT/6214Science Foundation Ireland (SFI) 19/FFP/6668
6 · The paper itself

Abstract

Breakthrough fungal infections in patients on antimicrobial prophylaxis during allogeneic hematopoietic cell transplantation (allo-HCT) represent a major and often unexplained cause of morbidity and mortality. Candida parapsilosis is a common cause of invasive candidiasis and has been classified as a high-priority fungal pathogen by the World Health Organization. In high-risk allo-HCT recipients on micafungin prophylaxis, we show that heteroresistance (the presence of a phenotypically unstable, low-frequency subpopulation of resistant cells (~1 in 10,000)) underlies breakthrough bloodstream infections by C. parapsilosis. By analyzing 219 clinical isolates from North America, Europe and Asia, we demonstrate widespread micafungin heteroresistance in C. parapsilosis. Standard antimicrobial susceptibility tests, such as broth microdilution or gradient diffusion assays, which guide drug selection for invasive infections, fail to detect micafungin heteroresistance in C. parapsilosis. To facilitate rapid detection of micafungin heteroresistance in C. parapsilosis, we constructed a predictive machine learning framework that classifies isolates as heteroresistant or susceptible using a maximum of ten genomic features. These results connect heteroresistance to unexplained antifungal prophylaxis failure in allo-HCT recipients and demonstrate a proof-of-principle diagnostic approach with the potential to guide clinical decisions and improve patient care.

Indexed as

Antifungal AgentsCandida parapsilosisDrug Resistance, FungalHematopoietic Stem Cell TransplantationMicafunginMicrobial Sensitivity TestsCandidiasisHumansMachine LearningAntifungal AgentsMicafungin

Identifiers

PMID39095599
PMCPMC11840754

What Socratic holds

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Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the Socratic graph.