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Skin Metagenomic Sequence Analysis of Early Candida auris Outbreaks in U.S. Nursing Homes

Huang, Xin ; Welsh, Rory M ; Deming, Clay ; Proctor, Diana M ; Thomas, Pamela J ; Gussin, Gabrielle M ; Huang, Susan S ; Kong, Heidi H ; Bentz, Meghan L ; Vallabhaneni, Snigdha ; Chiller, Tom ; Jackson, Brendan R ; Forsberg, Kaitlin ; Conlan, Sean ; Litvintseva, Anastasia P ; Segre, Julia A Young, Vincent B ; Young, Vincent B.

mSphere, 2021-08, Vol.6 (4), p.e0028721 [Periódico revisado por pares]

United States: American Society for Microbiology

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  • Título:
    Skin Metagenomic Sequence Analysis of Early Candida auris Outbreaks in U.S. Nursing Homes
  • Autor: Huang, Xin ; Welsh, Rory M ; Deming, Clay ; Proctor, Diana M ; Thomas, Pamela J ; Gussin, Gabrielle M ; Huang, Susan S ; Kong, Heidi H ; Bentz, Meghan L ; Vallabhaneni, Snigdha ; Chiller, Tom ; Jackson, Brendan R ; Forsberg, Kaitlin ; Conlan, Sean ; Litvintseva, Anastasia P ; Segre, Julia A
  • Young, Vincent B ; Young, Vincent B.
  • Assuntos: Candida auris - genetics ; Candidiasis - epidemiology ; Candidiasis - microbiology ; Disease Outbreaks ; Editor's Pick ; Human Microbiome ; Humans ; Metagenome ; Metagenomics - methods ; Mycobiome - genetics ; Nursing Homes - statistics & numerical data ; Research Article ; Risk Factors ; Skin - microbiology ; United States - epidemiology
  • É parte de: mSphere, 2021-08, Vol.6 (4), p.e0028721
  • Notas: For a commentary on this topic, see https://doi.org/10.1128/mSphere.00638-21.
    Citation Huang X, Welsh RM, Deming C, Proctor DM, Thomas PJ, NISC Comparative Sequencing Program, Gussin GM, Huang SS, Kong HH, Bentz ML, Vallabhaneni S, Chiller T, Jackson BR, Forsberg K, Conlan S, Litvintseva AP, Segre JA. 2021. Skin metagenomic sequence analysis of early Candida auris outbreaks in U.S. nursing homes. mSphere 6:e00287-21. https://doi.org/10.1128/mSphere.00287-21.
    Xin Huang and Rory M. Welsh contributed equally to this work. Author order was determined alphabetically.
  • Descrição: Candida auris is a human fungal pathogen classified as an urgent threat to the delivery of health care due to its extensive antimicrobial resistance and the high mortality rates associated with invasive infections. Global outbreaks have occurred in health care facilities, particularly, long-term care hospitals and nursing homes. Skin is the primary site of colonization for C. auris. To accelerate research studies, we developed microbiome sequencing protocols, including amplicon and metagenomic sequencing, directly from patient samples at health care facilities with ongoing C. auris outbreaks. We characterized the skin mycobiome with a database optimized to classify species and C. auris to the clade level. While species were the predominant skin-associated fungi, nursing home residents also harbored species, including C. albicans, and C. parapsilosis. Amplicon sequencing was concordant with culturing studies to identify C. auris-colonized patients and provided further resolution that distinct clades of C. auris are colonizing facilities in New York and Illinois. Shotgun metagenomic sequencing from a clinical sample with a high fungal bioburden generated a skin-associated profile of the C. auris genome. Future larger scale clinical studies are warranted to more systematically investigate the effects of commensal microbes and patient risk factors on the colonization and transmission of C. auris. Candida auris is a human pathogen of high concern due to its extensive antifungal drug resistance and high mortality rates associated with invasive infections. Candida auris skin colonization and persistence on environmental surfaces make this pathogen difficult to control once it enters a health care facility. Residents in long-term care hospitals and nursing homes are especially vulnerable. In this study, we developed microbiome sequencing protocols directly from surveillance samples, including amplicon and metagenomic sequencing, demonstrating concordance between sequencing results and culturing.
  • Editor: United States: American Society for Microbiology
  • Idioma: Inglês
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