A phylogenetic approach to explore the Aspergillus fumigatus conidial surface-associated proteome and its role in pathogenesis DOI Creative Commons
Gustavo H. Goldman, Clara Valero, Camila Figueiredo Pinzan

et al.

Research Square (Research Square), Journal Year: 2023, Volume and Issue: unknown

Published: Sept. 18, 2023

, an important pulmonary fungal pathogen causing several diseases collectively called aspergillosis, relies on asexual spores (conidia) for initiating host infection. Here, we used a phylogenomic approach to compare proteins in the conidial surface of

Language: Английский

IMA Genome – F19 DOI Creative Commons
Janneke Aylward, Andi M. Wilson, Cobus M. Visagie

et al.

IMA Fungus, Journal Year: 2024, Volume and Issue: 15(1)

Published: June 3, 2024

Abstract The pace at which Next Generation Sequence data is being produced continues to accelerate as technology improves. As a result, such are increasingly becoming accessible biologists outside of the field bioinformatics. In contrast, access training in methods genome assembly and annotation not growing similar rate. this issue, we report on Genome Assembly Workshop for Mycologists that was held Forestry Agricultural Biotechnology Institute (FABI) University Pretoria, South Africa make available 12 draft sequences emanating from event. With aim making process more biologists, provide step-by-step guide both annotation, intended encourage empower mycologists use their research.

Language: Английский

Citations

1
Pathogenicity is associated with population structure in a fungal pathogen of humans DOI
E. Anne Hatmaker, Amelia E. Barber, Milton T. Drott

et al.

Published: July 10, 2024

is a clinically and agriculturally important saprotrophic fungus responsible for severe human infections extensive crop losses. We analyzed genomic data from 250 (95 clinical 155 environmental)

Language: Английский

Citations

1
Pan-Genomics Reveals a New Variation Pattern of Secreted Proteins in Pyricularia oryzae DOI Creative Commons
Jiandong Bao, Zhe Wang, Meilian Chen

et al.

Journal of Fungi, Journal Year: 2022, Volume and Issue: 8(12), P. 1238 - 1238

Published: Nov. 23, 2022

(1) Background: Pyricularia oryzae, the causal agent of rice blast disease, is one major pathogens. The complex population structure P. oryzae facilitates rapid virulence variations, which make disease a serious challenge for global food security. There large body existing genomics research on however at pan-genome level not clear, and mechanism genetic divergence variations different sub-populations also unknown. (2) Methods: Based genome data published in NCBI, we constructed database consisted 156 strains (117 isolated from 39 other hosts). (3) Results: contained total 24,100 genes (12,005 novel absent reference 70-15), including 16,911 (~70%) core (population frequency ≥95%) 1378 (~5%) strain-specific ≤5%). Gene presence-absence variation (PAV) based clustering analysis revealed four subgroups (three Interestingly, cloned avirulence conventional secreted proteins (SPs, with signal peptides) were enriched high-frequency regions significantly associated transposable elements (TEs), while unconventional SPs (without low-frequency TEs. This will expand breadth depth fungus genome, serve as new blueprint scientists to further study pathogenic fungus.

Language: Английский

Citations

4
Genome-wide patterns of non-coding sequence variation in the major fungal pathogenAspergillus fumigatus DOI Creative Commons
Alec Brown, Jacob L. Steenwyk, Antonis Rokas

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: Jan. 9, 2024

Abstract A. fumigatus is a deadly fungal pathogen, responsible for >400,000 infections/year and high mortality rates. strains exhibit variation in infection-relevant traits, including their virulence. However, most protein-coding genes, those that modulate its virulence, are shared between closely related non-pathogenic relatives. We hypothesized genes substantial genetic the non-coding regions immediately upstream to start codons of which could reflect differences gene regulation strains. To begin testing this hypothesis, we identified 5,812 single-copy orthologs across genomes 263 showed higher levels sequence compared corresponding regions. Specifically, found 1,274 exhibited <75% nucleotide similarity (compared 928 regions) 3,721 75% 99% 2,482 Only 817 ≥99% 2,402 By examining whose identity scores ranged 99%, 478 total with signatures positive selection only 65 28 5 under associated known Non-coding region included single polymorphisms insertions or deletions at least few nucleotides. These results show harbor greater than regions, raising hypothesis may contribute phenotypic heterogeneity.

Language: Английский

Citations

0
Genome-wide patterns of noncoding and protein-coding sequence variation in the major fungal pathogen Aspergillus fumigatus DOI Creative Commons
Alec Brown, Jacob L. Steenwyk, Antonis Rokas

et al.

G3 Genes Genomes Genetics, Journal Year: 2024, Volume and Issue: 14(7)

Published: May 2, 2024

Abstract Aspergillus fumigatus is a deadly fungal pathogen, responsible for &gt;400,000 infections/year and high mortality rates. A. strains exhibit variation in infection-relevant traits, including their virulence. However, most protein-coding genes, those that modulate its virulence, are shared between closely related nonpathogenic relatives. We hypothesized genes substantial genetic the noncoding regions immediately upstream to start codons of which could reflect differences gene regulation strains. To begin testing this hypothesis, we identified 5,812 single-copy orthologs across genomes 263 In general, showed higher levels sequence compared with corresponding regions. Focusing on 2,482 whose identity scores ranged 75 99%, 478 total signatures positive selection only 65 Twenty-eight 5 under associated known Noncoding region included single-nucleotide polymorphisms insertions or deletions at least few nucleotides. These results show harbor greater than regions, raising hypothesis may contribute phenotypic heterogeneity.

Language: Английский

Citations

0
The FlbC transcription factor contributes to the generation of strain heterogeneity in Fumagillin mycotoxin production in Aspergillus fumigatus DOI Creative Commons
Yutaka Tanaka,

Ikumi Asagiri,

Rei Komiya

et al.

Research Square (Research Square), Journal Year: 2024, Volume and Issue: unknown

Published: June 4, 2024

Abstract Aspergillus fumigatus shows inter-strain heterogeneity in the repertoire of secondary metabolites such as mycotoxin fumagillin but mechanism by which this arises those production is still not understood. Here, we investigates effect flbC gene on A. introducing deletions into laboratory strains, A1151, A1159, and A1280 from different backgrounds examines heterogeneity. We found that, although all three strains were capable producing fumagillin, there was effects deletion production. This may be dependent differences expression levels fma family involved transcriptional activation transcription factors FapR LaeA. The level peaks at same time peak mycelial growth differential level, suggesting that among range are upstream flbC. Thus, our findings show interactions between regulating cluster probable cause for organism.

Language: Английский

Citations

0
Proteomics and Its Application to the Human Pathogenic Fungus Aspergillus fumigatus DOI

Thomas Krüger,

Olaf Kniemeyer

Published: Jan. 1, 2024

Language: Английский

Citations

0
Host, pathogenic fungi and the microbiome: A genetic triangle in infection DOI Creative Commons
Sara Gago, Martina Mandarano,

Claudia Floridi

et al.

Frontiers in Immunology, Journal Year: 2023, Volume and Issue: 13

Published: Jan. 17, 2023

OPINION article Front. Immunol., 17 January 2023Sec. Microbial Immunology Volume 13 - 2022 | https://doi.org/10.3389/fimmu.2022.1078014

Language: Английский

Citations

0
A phylogenetic approach to explore theAspergillus fumigatusconidial surface-associated proteome and its role in pathogenesis DOI Open Access
Clara Valero, Camila Figueiredo Pinzan, Patrícia Alves de Castro

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2023, Volume and Issue: unknown

Published: Aug. 22, 2023

ABSTRACT Aspergillus fumigatus , an important pulmonary fungal pathogen causing several diseases collectively called aspergillosis, relies on asexual spores or conidia for initiating host infection. Here, we used a phylogenomic approach to compare proteins in the conidial surface of A. two closely related non-pathogenic species, fischeri and oerlinghausenensis cryptic lentulus . After identifying 62 uniquely expressed surface, deleted 42 genes encoding proteins. We found deletion 33 these altered susceptibility macrophage killing, penetration damage epithelial cells, cytokine production. Notably, gene that encodes glycosylasparaginase, which modulates levels pro-inflammatory IL-1β, is infection immunocompetent murine model disease. These results suggest effectors are evasion modulation immune response at onset

Language: Английский

Citations

0
A phylogenetic approach to explore the Aspergillus fumigatus conidial surface-associated proteome and its role in pathogenesis DOI Creative Commons
Gustavo H. Goldman, Clara Valero, Camila Figueiredo Pinzan

et al.

Research Square (Research Square), Journal Year: 2023, Volume and Issue: unknown

Published: Sept. 18, 2023

, an important pulmonary fungal pathogen causing several diseases collectively called aspergillosis, relies on asexual spores (conidia) for initiating host infection. Here, we used a phylogenomic approach to compare proteins in the conidial surface of

Language: Английский

Citations

0