Author

C. A. Cuomo

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Microbiology· 11 Evolutionary Biology· 2

Signature Assays, Organisms & Methods

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Approach:experimental assay· 9 Assay:whole-genome sequencing· 6 Organism:fungi (other)· 5 Research Focus:cell type annotation· 4 Research Focus:host-pathogen & immune response· 4 Approach:statistical model· 4 Organism:C. elegans· 3 Research Focus:chromatin & epigenetic regulation· 3

Frequent Co-Authors

J. F. Munoz· 5 shared J. Heitman· 3 shared A. F. Averette· 2 shared A. R. Passer· 2 shared G. Janbon· 2 shared J. M. Rybak· 2 shared K. S. Barker· 2 shared M. A. Coelho· 2 shared

Activity by Year

2018-2022 · peak 4/yr

Co-Author Collaboration Network

10 top collaborators · 15 mutual co-author links

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5 shared papersMicrobiology

J. F. Munoz

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Author profile →

13 papers

Recent·Most cited

A novel rRNA hybridization-based approach to rapid, accurate Candida identification directly from blood culture

M. E. Matzko, P. C. S. Sephton-Clark, E. L. Young, T. A. Jhaveri, M. A. Martinsen, E. Mojica, R. Boykin, V. M. Pierce, C. A. Cuomo, R. P. Bhattacharyya

This paper introduces a rapid, accurate method for identifying Candida species directly from blood cultures with 100% accuracy in both reference and validation panels.

bioRxiv · May 9, 2022Microbiology

Obligate sexual reproduction of a homothallic fungus closely related to the Cryptococcus pathogenic species complex

A. R. Passer, S. A. Clancey, T. Shea, M. David-Palma, A. F. Averette, T. Boekhout, B. M. Porcel, M. Nowrousian, C. A. Cuomo, S. Sun, J. Heitman, M. A. Coelho

This study identifies the genetic mechanism enabling self-compatible sexual reproduction in Cryptococcus depauperatus, a fungus closely related to human pathogens.

bioRxiv · Mar 30, 2022Microbiology

In vivo emergence of high-level resistance during treatment reveals the first identified mechanism of amphotericin B resistance in Candida auris

J. M. Rybak, K. S. Barker, J. F. Munoz, J. E. Parker, S. Ahmad, E. Mokaddas, A. Abdullah, R. S. Elhagracy, S. L. Kelly, C. A. Cuomo, P. D. Rogers

The paper identifies a mutation in the ERG6 gene as the first mechanism of amphotericin B resistance in Candida auris, observed during in vivo treatment.

bioRxiv · Oct 8, 2021Microbiology

Chromosome-level genome assembly of a human fungal pathogen reveals synteny among geographically distinct species

M. Voorhies, S. Cohen, T. P. Shea, S. Petrus, J. F. Munoz, S. Poplawski, W. E. Goldman, T. P. Michael, C. A. Cuomo, A. Sil, S. Beyhan

This study presents chromosome-level genome assemblies of five Histoplasma strains, revealing synteny and gene expression patterns across geographically distinct isolates.

bioRxiv · Jul 13, 2021Microbiology

Genome-wide analysis of experimentally evolved Candida auris reveals multiple novel mechanisms of multidrug-resistance

H. Carolus, S. Pierson, J. F. Munoz, A. Subotic, R. B. Cruz, C. A. Cuomo, P. Van Dijck

This study uses in vitro experimental evolution to identify novel multidrug-resistance mechanisms in Candida auris, revealing mutations in resistance genes and new pathways contributing to drug resistance.

bioRxiv · Sep 28, 2020Microbiology

Application of an optimized annotation pipeline to the Cryptococcus deuterogattii genome reveals dynamic primary metabolic gene clusters and genomic impact of RNAi loss

P. A. G. Ferrareze, C. Maufrais, R. Silva Aroujo Streit, S. J. Priest, C. A. Cuomo, J. Heitman, C. C. Staats, G. Janbon

The paper optimizes an annotation pipeline for Cryptococcus deuterogattii using RNA-seq data, revealing dynamic transcriptome features and genomic changes linked to RNAi loss.

bioRxiv · Sep 1, 2020Microbiology

Genomic insights into the host specific adaptation of the Pneumocystis genus and emergence of the human pathogen Pneumocystis jirovecii

O. H. Cisse, L. Ma, J. P. Dekker, P. P. Khil, J.-H. Youn, J. M. Brenchley, R. V. Blair, B. Pahar, M. Chabe, K. K. A. Van Rompay, R. Keesler, A. Sukura, V. Hirsch, G. Kutty, Y. Liu, , J. A. Kovacs

The paper sequenced genomes of Pneumocystis species from different mammals to study host specificity and evolutionary adaptations, revealing insights into the emergence of the human pathogen P. jirovecii.

bioRxiv · Jul 29, 2020Evolutionary Biology

Mutations in TAC1B: a novel genetic determinant of clinical fluconazole resistance in C. auris

J. M. Rybak, J. F. Munoz, K. S. Barker, J. Parker, B. D. Esquivel, E. L. Berkow, S. R. Lockhart, L. Gade, G. E. Palmer, T. C. White, S. L. Kelly, C. A. Cuomo, P. D. Rogers

This paper identifies mutations in TAC1B as a novel genetic determinant of clinical fluconazole resistance in C. auris, showing their contribution to resistance through increased CDR1 expression and functional validation.

bioRxiv · Feb 18, 2020Microbiology

Dissecting the first phased dikaryotic genomes of the wheat rust pathogen Puccinia triticina reveals the mechanisms of somatic exchange in nature

J. Q. Wu, C. Dong, L. Song, C. A. Cuomo, R. F. Park

This study generates and analyzes the first dikaryotic phased genomes of Puccinia triticina, identifying a somatic hybrid and revealing mitotic crossover as the mechanism of parasexuality in rust pathogens.

bioRxiv · Jul 17, 2019 · PreprintMicrobiology

Genetic and genomic analyses reveal boundaries between species closely related to Cryptococcus pathogens

A. R. Passer, M. A. Coelho, R. B. Billmyre, M. Nowrousian, M. Mittelbach, A. M. Yurkov, A. F. Averette, C. A. Cuomo, S. Sun, J. Heitman

This study uses genomic analysis to identify three genetically distinct species within the Cryptococcus amylolentus complex, revealing chromosomal rearrangements and reproductive barriers.

bioRxiv · Feb 22, 2019Evolutionary Biology

Phenotypic variability correlates with clinical outcome in Cryptococcus isolates obtained from Botswanan HIV/AIDS patients

D. A. Carter, K. E. Fernandes, A. Brockway, M. Haverkamp, C. A. Cuomo, F. Van Ogtrop, J. R. Perfect

The paper examines Cryptococcus isolates from HIV/AIDS patients in Botswana, finding that phenotypic variability correlates with clinical outcomes, with 'large' and 'small' phenotypes linked to different disease symptoms and patient mortality.

bioRxiv · Sep 16, 2018Microbiology

Pathways of pathogenicity: The transcriptional stages of germination in the fatal fungal pathogen Rhizopus delemar

P. C. S. Sephton-Clark, J. F. Munoz, E. Ballou, C. A. Cuomo, K. Voelz

This study identifies the transcriptional stages of germination in Rhizopus delemar, revealing key molecular processes involved in spore-to-hyphae transition and disease progression.

bioRxiv · May 25, 2018Microbiology

Titan cells formation in Cryptococcus neoformans is finely tuned by environmental conditions and modulated by positive and negative genetic regulators

B. Hommel, L. Mukaremera, R. J. B. Cordero, C. coelho, C. A. Desjardins, A. Sturny-Leclere, G. Janbon, J. Perfect, J. A. Fraser, A. Casadevall, C. A. Cuomo, F. Dromer, K. Nielsen, A. Alanio

This study identifies environmental and genetic factors that regulate titan cell formation in Cryptococcus neoformans using an optimized in vitro assay.

bioRxiv · Mar 22, 2018Microbiology