Cargando…

Examination of Genome-Wide Ortholog Variation in Clinical and Environmental Isolates of the Fungal Pathogen Aspergillus fumigatus

Aspergillus fumigatus is both an environmental saprobe and an opportunistic human fungal pathogen. Knowledge of genomic variation across A. fumigatus isolates is essential for understanding the evolution of pathogenicity, virulence, and resistance to antifungal drugs. Here, we investigated 206 A. fu...

Descripción completa

Detalles Bibliográficos
Autores principales: Horta, Maria Augusta C., Steenwyk, Jacob L., Mead, Matthew E., dos Santos, Luciano H. Braz, Zhao, Shu, Gibbons, John G., Marcet-Houben, Marina, Gabaldón, Toni, Rokas, Antonis, Goldman, Gustavo H.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: American Society for Microbiology 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9426589/
https://www.ncbi.nlm.nih.gov/pubmed/35766381
http://dx.doi.org/10.1128/mbio.01519-22
_version_ 1784778716187983872
author Horta, Maria Augusta C.
Steenwyk, Jacob L.
Mead, Matthew E.
dos Santos, Luciano H. Braz
Zhao, Shu
Gibbons, John G.
Marcet-Houben, Marina
Gabaldón, Toni
Rokas, Antonis
Goldman, Gustavo H.
author_facet Horta, Maria Augusta C.
Steenwyk, Jacob L.
Mead, Matthew E.
dos Santos, Luciano H. Braz
Zhao, Shu
Gibbons, John G.
Marcet-Houben, Marina
Gabaldón, Toni
Rokas, Antonis
Goldman, Gustavo H.
author_sort Horta, Maria Augusta C.
collection PubMed
description Aspergillus fumigatus is both an environmental saprobe and an opportunistic human fungal pathogen. Knowledge of genomic variation across A. fumigatus isolates is essential for understanding the evolution of pathogenicity, virulence, and resistance to antifungal drugs. Here, we investigated 206 A. fumigatus isolates (133 clinical and 73 environmental isolates), aiming to identify genes with variable presence across isolates and test whether this variation was related to the clinical or environmental origin of isolates. The PanOrtho genome of A. fumigatus consists of 13,085 ortholog groups, of which 7,773 (59.4%) are shared by all isolates (core groups) and 5,312 (40.6%) vary in their gene presence across isolates (accessory groups plus singletons). Despite differences in the distribution of orthologs across all isolates, no significant differences were observed among clinical versus environmental isolates when phylogeny was accounted for. Orthologs that differ in their distribution across isolates tend to occur at low frequency and/or be restricted to specific isolates; thus, the degree of genomic conservation between orthologs of A. fumigatus is high. These results suggest that differences in the distribution of orthologs within A. fumigatus cannot be associated with the clinical or environmental origin of isolates.
format Online
Article
Text
id pubmed-9426589
institution National Center for Biotechnology Information
language English
publishDate 2022
publisher American Society for Microbiology
record_format MEDLINE/PubMed
spelling pubmed-94265892022-08-31 Examination of Genome-Wide Ortholog Variation in Clinical and Environmental Isolates of the Fungal Pathogen Aspergillus fumigatus Horta, Maria Augusta C. Steenwyk, Jacob L. Mead, Matthew E. dos Santos, Luciano H. Braz Zhao, Shu Gibbons, John G. Marcet-Houben, Marina Gabaldón, Toni Rokas, Antonis Goldman, Gustavo H. mBio Research Article Aspergillus fumigatus is both an environmental saprobe and an opportunistic human fungal pathogen. Knowledge of genomic variation across A. fumigatus isolates is essential for understanding the evolution of pathogenicity, virulence, and resistance to antifungal drugs. Here, we investigated 206 A. fumigatus isolates (133 clinical and 73 environmental isolates), aiming to identify genes with variable presence across isolates and test whether this variation was related to the clinical or environmental origin of isolates. The PanOrtho genome of A. fumigatus consists of 13,085 ortholog groups, of which 7,773 (59.4%) are shared by all isolates (core groups) and 5,312 (40.6%) vary in their gene presence across isolates (accessory groups plus singletons). Despite differences in the distribution of orthologs across all isolates, no significant differences were observed among clinical versus environmental isolates when phylogeny was accounted for. Orthologs that differ in their distribution across isolates tend to occur at low frequency and/or be restricted to specific isolates; thus, the degree of genomic conservation between orthologs of A. fumigatus is high. These results suggest that differences in the distribution of orthologs within A. fumigatus cannot be associated with the clinical or environmental origin of isolates. American Society for Microbiology 2022-06-29 /pmc/articles/PMC9426589/ /pubmed/35766381 http://dx.doi.org/10.1128/mbio.01519-22 Text en Copyright © 2022 Horta et al. https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution 4.0 International license (https://creativecommons.org/licenses/by/4.0/) .
spellingShingle Research Article
Horta, Maria Augusta C.
Steenwyk, Jacob L.
Mead, Matthew E.
dos Santos, Luciano H. Braz
Zhao, Shu
Gibbons, John G.
Marcet-Houben, Marina
Gabaldón, Toni
Rokas, Antonis
Goldman, Gustavo H.
Examination of Genome-Wide Ortholog Variation in Clinical and Environmental Isolates of the Fungal Pathogen Aspergillus fumigatus
title Examination of Genome-Wide Ortholog Variation in Clinical and Environmental Isolates of the Fungal Pathogen Aspergillus fumigatus
title_full Examination of Genome-Wide Ortholog Variation in Clinical and Environmental Isolates of the Fungal Pathogen Aspergillus fumigatus
title_fullStr Examination of Genome-Wide Ortholog Variation in Clinical and Environmental Isolates of the Fungal Pathogen Aspergillus fumigatus
title_full_unstemmed Examination of Genome-Wide Ortholog Variation in Clinical and Environmental Isolates of the Fungal Pathogen Aspergillus fumigatus
title_short Examination of Genome-Wide Ortholog Variation in Clinical and Environmental Isolates of the Fungal Pathogen Aspergillus fumigatus
title_sort examination of genome-wide ortholog variation in clinical and environmental isolates of the fungal pathogen aspergillus fumigatus
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9426589/
https://www.ncbi.nlm.nih.gov/pubmed/35766381
http://dx.doi.org/10.1128/mbio.01519-22
work_keys_str_mv AT hortamariaaugustac examinationofgenomewideorthologvariationinclinicalandenvironmentalisolatesofthefungalpathogenaspergillusfumigatus
AT steenwykjacobl examinationofgenomewideorthologvariationinclinicalandenvironmentalisolatesofthefungalpathogenaspergillusfumigatus
AT meadmatthewe examinationofgenomewideorthologvariationinclinicalandenvironmentalisolatesofthefungalpathogenaspergillusfumigatus
AT dossantoslucianohbraz examinationofgenomewideorthologvariationinclinicalandenvironmentalisolatesofthefungalpathogenaspergillusfumigatus
AT zhaoshu examinationofgenomewideorthologvariationinclinicalandenvironmentalisolatesofthefungalpathogenaspergillusfumigatus
AT gibbonsjohng examinationofgenomewideorthologvariationinclinicalandenvironmentalisolatesofthefungalpathogenaspergillusfumigatus
AT marcethoubenmarina examinationofgenomewideorthologvariationinclinicalandenvironmentalisolatesofthefungalpathogenaspergillusfumigatus
AT gabaldontoni examinationofgenomewideorthologvariationinclinicalandenvironmentalisolatesofthefungalpathogenaspergillusfumigatus
AT rokasantonis examinationofgenomewideorthologvariationinclinicalandenvironmentalisolatesofthefungalpathogenaspergillusfumigatus
AT goldmangustavoh examinationofgenomewideorthologvariationinclinicalandenvironmentalisolatesofthefungalpathogenaspergillusfumigatus