Utility of Whole-Genome Sequencing to Ascertain Locally Acquired Cases of Coccidioidomycosis, Washington, USA.

Emerging Infectious Diseases
Hanna N OlteanAnastasia P Litvintseva

Abstract

Coccidioidomycosis is an emerging fungal infection in Washington, USA, and the epidemiology of the disease in this state is poorly understood. We used whole-genome sequencing to differentiate locally acquired cases in Washington on the basis of the previously identified phylogeographic population structure of Coccidioides spp. Clinical isolates from coccidioidomycosis cases involving possible Washington soil exposure were included. Of 17 human infections with epidemiologic evidence of possible local acquisition, 4 were likely locally acquired infections and 13 were likely acquired outside Washington. Isolates from locally acquired cases clustered within the previously established Washington clade of C. immitis. Genetic differences among these strains suggest multiple environmental reservoirs of C. immitis in the state.

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Citations

Jan 11, 2020·Emerging Infectious Diseases·Hanna N OlteanOrion Z McCotter
Feb 29, 2020·Clinical Infectious Diseases : an Official Publication of the Infectious Diseases Society of America·Joshua Fierer
May 3, 2020·The Journal of Immunology : Official Journal of the American Association of Immunologists·Althea CampuzanoChiung-Yu Hung
Apr 21, 2020·Emerging Infectious Diseases·Jolene R BowersDavid M Engelthaler
Mar 7, 2021·Journal of Fungi·Shawn R LockhartAnastasia P Litvintseva
Jun 3, 2021·Diagnostics·Victoria PoplinNathan C Bahr
Feb 11, 2020·Mycopathologia·Nida AshrafNathan C Bahr
Aug 11, 2021·MBio·Kizee A EtienneAnastasia P Litvintseva
Aug 10, 2021·Current Clinical Microbiology Reports·Morgan E GorrisJessie K Uehling

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Datasets Mentioned

BETA
PRJNA472461

Methods Mentioned

BETA
internal transcribed spacer sequencing
biopsy

Software Mentioned

EMBOSS
NCBI
Samtools
Primer3

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