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List of works by Christina A Cuomo

50 Years of Emmonsia Disease in Humans: The Dramatic Emergence of a Cluster of Novel Fungal Pathogens

scientific article published on 19 November 2015

A Multistate Toggle Switch Defines Fungal Cell Fates and Is Regulated by Synergistic Genetic Cues

scientific article

A New Lineage of Cryptococcus gattii (VGV) Discovered in the Central Zambezian Miombo Woodlands

scientific article published on 12 November 2019

Adaptation of the black yeast Wangiella dermatitidis to ionizing radiation: molecular and cellular mechanisms

scientific article published in 2012

Advances in Cryptococcus genomics: insights into the evolution of pathogenesis

scientific article published on 19 February 2018

Amoeba Predation of Cryptococcus neoformans Results in Pleiotropic Changes to Traits Associated with Virulence

scientific article published in 2021

An oxindole efflux inhibitor potentiates azoles and impairs virulence in the fungal pathogen Candida auris

scientific article published on 22 December 2020

Analysis of a food-borne fungal pathogen outbreak: virulence and genome of a Mucor circinelloides isolate from yogurt

scientific article

Analysis of regions of RAG-2 important for V(D)J recombination

scientific article published on May 1994

Analysis of the DNA sequence and duplication history of human chromosome 15

scientific article

Analysis of the genome and transcriptome of Cryptococcus neoformans var. grubii reveals complex RNA expression and microevolution leading to virulence attenuation

scientific article

Antagonistic paralogs control a switch between growth and pathogen resistance in C. elegans

scientific article published on 14 January 2019

Application of an Optimized Annotation Pipeline to the Cryptococcus Deuterogattii Genome Reveals Dynamic Primary Metabolic Gene Clusters and Genomic Impact of RNAi Loss

scientific article published in September 2020

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

scientific article published on 9 February 2021

Approaches to Fungal Genome Annotation

scientific article (publication date: 3 October 2011)

Assembly of the Candida albicans genome into sixteen supercontigs aligned on the eight chromosomes.

scientific article

Best practices on the differential expression analysis of multi-species RNA-seq

publication published on 29 April 2021

CandidaDB: a multi-genome database for Candida species and related Saccharomycotina

scientific article

Chaos of Rearrangements in the Mating-Type Chromosomes of the Anther-Smut Fungus Microbotryum lychnidis-dioicae.

scientific article

Clade-specific chromosomal rearrangements and loss of subtelomeric adhesins in Candida auris

scientific article published on 26 March 2021

Cleavage at a V(D)J recombination signal requires only RAG1 and RAG2 proteins and occurs in two steps

scientific article published in November 1995

Comparative Analysis Highlights Variable Genome Content of Wheat Rusts and Divergence of the Mating Loci

scientific article

Comparative Genome Analysis of Trichophyton rubrum and Related Dermatophytes Reveals Candidate Genes Involved in Infection

scientific article

Comparative Genomics Integrated with Association Analysis Identifies Candidate Effector Genes Corresponding to Lr20 in Phenotype-Paired Puccinia triticina Isolates from Australia

scientific article published on 09 February 2017

Comparative Population Genomics Analysis of the Mammalian Fungal Pathogen Pneumocystis

scientific article

Comparative genomic analysis of human fungal pathogens causing paracoccidioidomycosis

scientific article

Comparative genomic and transcriptomic analysis of wangiella dermatitidis, a major cause of phaeohyphomycosis and a model black yeast human pathogen

scientific article

Comparative genomics of Australian isolates of the wheat stem rust pathogen Puccinia graminis f. sp. tritici reveals extensive polymorphism in candidate effector genes

scientific article

Comparative genomics of white and opaque cell states supports an epigenetic mechanism of phenotypic switching in Candida albicans

scientific article published in February 2021

Comparative genomics reveals mobile pathogenicity chromosomes in Fusarium

scientific article

Comparative genomics yields insights into niche adaptation of plant vascular wilt pathogens

scientific article

Comparative proteomics of extracellular proteinsin vitro andin planta from the pathogenic fungusFusarium graminearum

article

Complete Genome Sequences for Two Talaromyces marneffei Clinical Isolates from Northern and Southern Vietnam

scientific article published on 09 January 2020

Complete genome sequences from three genetically distinct strains reveal high intraspecies genetic diversity in the microsporidian Encephalitozoon cuniculi

scientific article published on 4 January 2013

Conserved loci of leaf and stem rust fungi of wheat share synteny interrupted by lineage-specific influx of repeat elements

scientific article

Contrasting host-pathogen interactions and genome evolution in two generalist and specialist microsporidian pathogens of mosquitoes

scientific article published on 13 May 2015

Coordinated host-pathogen transcriptional dynamics revealed using sorted subpopulations and single macrophages infected with Candida albicans

scientific article published on 08 April 2019

Coordinated host-pathogen transcriptional dynamics revealed using sorted subpopulations and single, Candida albicans infected macrophages

Cryptococcus neoformans Recovered From Olive Trees (Olea europaea) in Turkey Reveal Allopatry With African and South American Lineages

scientific article published on 08 November 2019

DNA sequence and analysis of human chromosome 18

scientific article

DNA sequence and analysis of human chromosome 8

scientific article

DNA sequence and structure requirements for cleavage of V(D)J recombination signal sequences

scientific article published on October 1996

DNA sequence of human chromosome 17 and analysis of rearrangement in the human lineage

scientific article

DNA-dependent kinase (p350) as a candidate gene for the murine SCID defect

scientific article

Degeneration of the nonrecombining regions in the mating-type chromosomes of the anther-smut fungi

scientific article

Diversity and Complexity of the Large Surface Protein Family in the Compacted Genomes of Multiple Pneumocystis Species

scientific article published on 03 March 2020

Diversity, multifaceted evolution, and facultative saprotrophism in the European Batrachochytrium salamandrivorans epidemic

scientific article published on 18 November 2021

Draft Genome Sequence of the Cellulolytic Fungus Chaetomium globosum

scientific article

Emergomyces: The global rise of new dimorphic fungal pathogens

scientific article published on 19 September 2019

Erratum for Kim et al., "Genetic Analysis of Candida auris Implicates Hsp90 in Morphogenesis and Azole Tolerance and Cdr1 in Azole Resistance"

scientific article published on 19 March 2019

Evolution of pathogenicity and sexual reproduction in eight Candida genomes

scientific article

Evolutionary Persistence of DNA Methylation for Millions of Years after Ancient Loss of a De Novo Methyltransferase

scientific article published on 01 February 2020

Experimental evolution identifies adaptive aneuploidy as a mechanism of fluconazole resistance in Candida auris

scientific article published on 19 October 2020

Exploring the genomic diversity of black yeasts and relatives (Chaetothyriales, Ascomycota).

scientific article published on 27 January 2017

Finding a Missing Gene: EFG1 Regulates Morphogenesis in Candida tropicalis

scientific article published on 9 March 2015

Fungal genome and mating system transitions facilitated by chromosomal translocations involving intercentromeric recombination

scientific article published on 11 August 2017

Fungi on the skin: dermatophytes and Malassezia

scientific article

Future-Proofing Your Microbiology Resource Announcements Genome Assembly for Reproducibility and Clarity

scientific article published on 05 September 2019

Gene Expression of Diverse Cryptococcus Isolates during Infection of the Human Central Nervous System

scientific article published on 21 December 2021

Genetic Analysis of Implicates Hsp90 in Morphogenesis and Azole Tolerance and Cdr1 in Azole Resistance

scientific article published on 29 January 2019

Genetic and Genomic Analyses Reveal Boundaries between Species Closely Related to Cryptococcus Pathogens

scientific article published on 11 June 2019

Genetic and phenotypic intra-species variation in Candida albicans

scientific article published in March 2015

Genome Diversity, Recombination, and Virulence across the Major Lineages of Paracoccidioides

scientific article published on 28 September 2016

Genome Evolution and Innovation across the Four Major Lineages of Cryptococcus gattii ⬇️

scientific article

Genome Sequence for Candida albicans Clinical Oral Isolate 529L

scientific article published on 20 June 2019

Genome Sequence of Spizellomyces punctatus

scientific article published on 18 August 2016

Genome Sequence of the Black Yeast Exophiala lecanii-corni

Genome Sequence of the Microsporidian Species Nematocida sp1 Strain ERTm6 (ATCC PRA-372).

scientific article

Genome Sequence of the Pathogenic Fungus Sporothrix schenckii (ATCC 58251).

scientific article

Genome analysis of three Pneumocystis species reveals adaptation mechanisms to life exclusively in mammalian hosts

scientific article published on 22 February 2016

Genome analysis reveals evolutionary mechanisms of adaptation in systemic dimorphic fungi

scientific article published on 14 March 2018

Genome update of the dimorphic human pathogenic fungi causing paracoccidioidomycosis

scientific article

Genome variation in Cryptococcus gattii, an emerging pathogen of immunocompetent hosts.

scientific article

Genome-Wide Analysis of Experimentally Evolved Candida auris Reveals Multiple Novel Mechanisms of Multidrug Resistance

scientific article published on 5 April 2021

Genomic Understanding of an Infectious Brain Disease from the Desert.

scientific article published on 11 January 2018

Genomic analysis of the basal lineage fungus Rhizopus oryzae reveals a whole-genome duplication

scientific article

Genomic analysis of the necrotrophic fungal pathogens Sclerotinia sclerotiorum and Botrytis cinerea

scientific article

Genomic basis of multidrug-resistance, mating, and virulence in Candida auris and related emerging species

Genomic characterization of recurrent mold infections in thoracic transplant recipients

scholarly article by Julia A Messina et al published October 2018 in Transplant Infectious Disease

Genomic diversity of the human pathogen Paracoccidioides across the South American continent

scientific article published on 20 April 2020

Genomic epidemiology of a case cluster in Glasgow, Scotland, 2018

scientific article published in March 2021

Genomic epidemiology of the UK outbreak of the emerging human fungal pathogen Candida auris

scientific article published on 29 March 2018

Genomic innovations linked to infection strategies across emerging pathogenic chytrid fungi

scientific article

Genomic insights into multidrug-resistance, mating and virulence in Candida auris and related emerging species

scientific article published in Nature Communications

Genomic insights into the host specific adaptation of the Pneumocystis genus

scientific article published on 08 March 2021

Genomics of the fungal kingdom: insights into eukaryotic biology

scientific article

Global analysis of mutations driving microevolution of a heterozygous diploid fungal pathogen

article published in the Proceedings of the National Academy of Sciences of the United States of America

Harnessing Whole Genome Sequencing in Medical Mycology

scientific article published on 9 June 2017

Highly recombinant VGII Cryptococcus gattii population develops clonal outbreak clusters through both sexual macroevolution and asexual microevolution

scientific article

Host-pathogen transcriptomics of macrophages, Mucorales and their endosymbionts: a polymicrobial pas de trois

Hsf1 and Hsp90 orchestrate temperature-dependent global transcriptional remodelling and chromatin architecture in Candida albicans.

scientific article

Human Blastomycosis in South Africa Caused by Blastomyces percursus and Blastomyces emzantsi sp. nov., 1967 to 2014

scientific article published on 24 February 2020

Human chromosome 11 DNA sequence and analysis including novel gene identification

scientific article

Identification of Candida auris by Use of the Updated Vitek 2 Yeast Identification System, Version 8.01: a Multilaboratory Evaluation Study

scientific article published on 23 October 2019

Identification of the mating-type (MAT) locus that controls sexual reproduction of Blastomyces dermatitidis

scientific article published on 9 November 2012

Intracellular Action of a Secreted Peptide Required for Fungal Virulence

scientific article

Isolation of Blastomyces dermatitidis yeast from lung tissue during murine infection for in vivo transcriptional profiling

scientific article published on 14 March 2013

Landscape of gene expression variation of natural isolates of Cryptococcus neoformans in response to biologically relevant stresses

scientific article published on 01 January 2020

Linkage to the mating-type locus across the genus Microbotryum: insights into nonrecombining chromosomes

scientific article

Lower prevalence but similar fitness in a parasitic fungus at higher radiation levels near Chernobyl

scientific article published on 2 May 2016

Microevolution of Serial Clinical Isolates of Cryptococcus neoformans var. grubii and C. gattii

scientific article published on 07 March 2017

Microevolutionary traits and comparative population genomics of the emerging pathogenic fungus Cryptococcus gattii

scientific article published on December 2016

Microsporidian genome analysis reveals evolutionary strategies for obligate intracellular growth.

scientific article

Mutations in TAC1B: a Novel Genetic Determinant of Clinical Fluconazole Resistance in Candida auris

scientific article published on 12 May 2020

Novel taxa of thermally dimorphic systemic pathogens in the Ajellomycetaceae (Onygenales).

scientific article

Novel, panzootic and hybrid genotypes of amphibian chytridiomycosis associated with the bullfrog trade

scientific article published on 31 July 2012

Obligate biotrophy features unraveled by the genomic analysis of rust fungi

scientific article

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

scientific article published on 17 June 2022

One fungus, one name: defining the genus Fusarium in a scientifically robust way that preserves longstanding use.

scientific article published in May 2013

Paracoccidioides spp. catalases and their role in antioxidant defense against host defense responses

scientific article

Pas de deux: An Intricate Dance of Anther Smut and Its Host

scientific article

Pathways of Pathogenicity: Transcriptional Stages of Germination in the Fatal Fungal Pathogen

scientific article published on 26 September 2018

Phenotypic Characterization and Comparative Genomics of the Melanin-Producing Yeast Reveals a Distinct Stress Tolerance Profile and Reduced Ribosomal Genetic Content

scientific article published on 15 December 2021

Phenotypic Variability Correlates with Clinical Outcome in Isolates Obtained from Botswanan HIV/AIDS Patients

article

Pilon: an integrated tool for comprehensive microbial variant detection and genome assembly improvement

scientific article

Population Genomics Of Cryptococcus neoformans var. grubii Reveals New Biogeographic Relationships And Finely Maps Hybridization

scientific article published in May 2017

Population genetics and microevolution of clinical Candida glabrata reveals recombinant sequence types and hyper-variation within mitochondrial genomes, virulence genes, and drug targets

scientific article published on 01 May 2022

Population genomics and the evolution of virulence in the fungal pathogen Cryptococcus neoformans

scientific article

RNAi is a critical determinant of centromere evolution in closely related fungi

scientific article published on 5 March 2018

Rapid genome sequencing for outbreak analysis of the emerging human fungal pathogen Candida auris

Rch1, a protein that specifically interacts with the RAG-1 recombination-activating protein

scientific article

SREB, a GATA transcription factor that directs disparate fates in Blastomyces dermatitidis including morphogenesis and siderophore biosynthesis

scientific article

Sequencing and characterization of the complete mitochondrial genomes of three Pneumocystis species provide new insights into divergence between human and rodent Pneumocystis

scientific article published on 7 February 2013

Sequencing of Aspergillus nidulans and comparative analysis with A. fumigatus and A. oryzae

scientific article

Sex and parasites: genomic and transcriptomic analysis of Microbotryum lychnidis-dioicae, the biotrophic and plant-castrating anther smut fungus

scientific article published on 16 June 2015

Simultaneous Emergence of Multidrug-Resistant Candida auris on 3 Continents Confirmed by Whole-Genome Sequencing and Epidemiological Analyses

scientific article

Standardized metadata for human pathogen/vector genomic sequences

scientific article (publication date: 2014)

The Case for Adopting the "Species Complex" Nomenclature for the Etiologic Agents of Cryptococcosis

scientific article (publication date: 11 January 2017)

The Dynamic Genome and Transcriptome of the Human Fungal Pathogen Blastomyces and Close Relative Emmonsia

scientific article published on 6 October 2015

The Fungal Genome Initiative and Lessons Learned from Genome Sequencing

scientific article published on 01 March 2010

The Fusarium graminearum genome reveals a link between localized polymorphism and pathogen specialization

scientific article

The Relaunch of

scientific article published on 3 September 2021

The breakpoint region of the most common isochromosome, i(17q), in human neoplasia is characterized by a complex genomic architecture with large, palindromic, low-copy repeats

scientific article

The evolution of drug resistance in clinical isolates of Candida albicans

scientific article

The future of fungi: threats and opportunities

scientific article published on 4 November 2022

The importance of antimicrobial resistance in medical mycology

scientific article published on 12 September 2022

Threats Posed by the Fungal Kingdom to Humans, Wildlife, and Agriculture

scientific article published on 05 May 2020

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

scientific article published on 18 May 2018

Tracing Genetic Exchange and Biogeography of Cryptococcus neoformans var. grubii at the Global Population Level.

scientific article published on 5 July 2017

Tracing the Evolutionary History and Global Expansion of Candida auris Using Population Genomic Analyses

scientific article published on 28 April 2020

Tracking a Global Threat: a New Genotyping Method for Candida auris

scientific article published on 10 March 2020

Transcriptional Heterogeneity of VGII Compared with Non-VGII Lineages Underpins Key Pathogenicity Pathways

scientific article published in 2018

Transcriptional analysis of mating and pre-infection stages of the anther smut, Microbotryum lychnidis-dioicae

scientific article published on 17 January 2017

Transcriptional heterogeneity of Cryptococcus gattii VGII compared with non-VGII lineages underpins key pathogenicity pathways

Ubiquitin-mediated response to microsporidia and virus infection in C. elegans

scientific article (publication date: June 2014)

Understanding the Emergence of Multidrug-Resistant Candida: Using Whole-Genome Sequencing to Describe the Population Structure of Candida haemulonii Species Complex

scientific article published on 10 June 2020

Use of Multiple Sequencing Technologies To Produce a High-Quality Genome of the Fungus Pseudogymnoascus destructans, the Causative Agent of Bat White-Nose Syndrome

scientific article published on 30 June 2016

Using transcription of six Puccinia triticina races to identify the effective secretome during infection of wheat

scientific article published on 13 January 2014

Whole Genome Sequence of the Heterozygous Clinical Isolate Candida krusei 81-B-5.

scientific article published on 10 July 2017

Whole-Genome Analysis Illustrates Global Clonal Population Structure of the Ubiquitous Dermatophyte Pathogen Trichophyton rubrum.

scientific article published on 21 February 2018

Whole-genome sequencing of multiple isolates of Puccinia triticina reveals asexual lineages evolving by recurrent mutations

scientific article published on 6 September 2021

Zinc Cluster Transcription Factors Alter Virulence in Candida albicans

scientific article published on 07 December 2016

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