The genome of opportunistic fungal pathogen Fusarium oxysporum carries a unique set of lineage-specific chromosomes

Yong Zhang; He Yang; David Turra; Shiguo Zhou; Dilay Hazal Ayhan; Gregory A. DeIulio; Li Guo; Karen Broz; Nathan Wiederhold; Jeffrey J. Coleman; Kerry O’ Donnell; Ilan Youngster; Alexander J. McAdam; Sergey Savinov; Terrance Shea; Sarah Young; Qiandong Zeng; Martijn Rep; Eric Pearlman; David C. Schwartz; Antonio Di Pietro; H. Corby Kistler; Li Jun Ma

doi:10.1038/s42003-020-0770-2

The genome of opportunistic fungal pathogen Fusarium oxysporum carries a unique set of lineage-specific chromosomes

Yong Zhang, He Yang, David Turra, Shiguo Zhou, Dilay Hazal Ayhan, Gregory A. DeIulio, Li Guo, Karen Broz, Nathan Wiederhold, Jeffrey J. Coleman, Kerry O’ Donnell, Ilan Youngster, Alexander J. McAdam, Sergey Savinov, Terrance Shea, Sarah Young, Qiandong Zeng, Martijn Rep, Eric Pearlman, David C. SchwartzAntonio Di Pietro, H. Corby Kistler, Li Jun Ma

Department of Pathology

Research output: Contribution to journal › Article › peer-review

62 Scopus citations

Abstract

Fusarium oxysporum is a cross-kingdom fungal pathogen that infects plants and humans. Horizontally transferred lineage-specific (LS) chromosomes were reported to determine host-specific pathogenicity among phytopathogenic F. oxysporum. However, the existence and functional importance of LS chromosomes among human pathogenic isolates are unknown. Here we report four unique LS chromosomes in a human pathogenic strain NRRL 32931, isolated from a leukemia patient. These LS chromosomes were devoid of housekeeping genes, but were significantly enriched in genes encoding metal ion transporters and cation transporters. Homologs of NRRL 32931 LS genes, including a homolog of ceruloplasmin and the genes that contribute to the expansion of the alkaline pH-responsive transcription factor PacC/Rim1p, were also present in the genome of NRRL 47514, a strain associated with Fusarium keratitis outbreak. This study provides the first evidence, to our knowledge, for genomic compartmentalization in two human pathogenic fungal genomes and suggests an important role of LS chromosomes in niche adaptation.

Original language	English (US)
Article number	50
Journal	Communications Biology
Volume	3
Issue number	1
DOIs	https://doi.org/10.1038/s42003-020-0770-2
State	Published - Dec 1 2020

ASJC Scopus subject areas

Medicine (miscellaneous)
General Biochemistry, Genetics and Molecular Biology
General Agricultural and Biological Sciences

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Zhang, Y., Yang, H., Turra, D., Zhou, S., Ayhan, D. H., DeIulio, G. A., Guo, L., Broz, K., Wiederhold, N., Coleman, J. J., Donnell, K. O., Youngster, I., McAdam, A. J., Savinov, S., Shea, T., Young, S., Zeng, Q., Rep, M., Pearlman, E., ... Ma, L. J. (2020). The genome of opportunistic fungal pathogen Fusarium oxysporum carries a unique set of lineage-specific chromosomes. Communications Biology, 3(1), Article 50. https://doi.org/10.1038/s42003-020-0770-2

Zhang, Y, Yang, H, Turra, D, Zhou, S, Ayhan, DH, DeIulio, GA, Guo, L, Broz, K, Wiederhold, N, Coleman, JJ, Donnell, KO, Youngster, I, McAdam, AJ, Savinov, S, Shea, T, Young, S, Zeng, Q, Rep, M, Pearlman, E, Schwartz, DC, Di Pietro, A, Kistler, HC & Ma, LJ 2020, 'The genome of opportunistic fungal pathogen Fusarium oxysporum carries a unique set of lineage-specific chromosomes', Communications Biology, vol. 3, no. 1, 50. https://doi.org/10.1038/s42003-020-0770-2

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abstract = "Fusarium oxysporum is a cross-kingdom fungal pathogen that infects plants and humans. Horizontally transferred lineage-specific (LS) chromosomes were reported to determine host-specific pathogenicity among phytopathogenic F. oxysporum. However, the existence and functional importance of LS chromosomes among human pathogenic isolates are unknown. Here we report four unique LS chromosomes in a human pathogenic strain NRRL 32931, isolated from a leukemia patient. These LS chromosomes were devoid of housekeeping genes, but were significantly enriched in genes encoding metal ion transporters and cation transporters. Homologs of NRRL 32931 LS genes, including a homolog of ceruloplasmin and the genes that contribute to the expansion of the alkaline pH-responsive transcription factor PacC/Rim1p, were also present in the genome of NRRL 47514, a strain associated with Fusarium keratitis outbreak. This study provides the first evidence, to our knowledge, for genomic compartmentalization in two human pathogenic fungal genomes and suggests an important role of LS chromosomes in niche adaptation.",

author = "Yong Zhang and He Yang and David Turra and Shiguo Zhou and Ayhan, {Dilay Hazal} and DeIulio, {Gregory A.} and Li Guo and Karen Broz and Nathan Wiederhold and Coleman, {Jeffrey J.} and Donnell, {Kerry O{\textquoteright}} and Ilan Youngster and McAdam, {Alexander J.} and Sergey Savinov and Terrance Shea and Sarah Young and Qiandong Zeng and Martijn Rep and Eric Pearlman and Schwartz, {David C.} and {Di Pietro}, Antonio and Kistler, {H. Corby} and Ma, {Li Jun}",

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AU - Yang, He

AU - Turra, David

AU - Zhou, Shiguo

AU - Ayhan, Dilay Hazal

AU - DeIulio, Gregory A.

AU - Guo, Li

AU - Broz, Karen

AU - Wiederhold, Nathan

AU - Coleman, Jeffrey J.

AU - Donnell, Kerry O’

AU - Youngster, Ilan

AU - McAdam, Alexander J.

AU - Savinov, Sergey

AU - Shea, Terrance

AU - Young, Sarah

AU - Zeng, Qiandong

AU - Rep, Martijn

AU - Pearlman, Eric

AU - Schwartz, David C.

AU - Di Pietro, Antonio

AU - Kistler, H. Corby

AU - Ma, Li Jun

PY - 2020/12/1

Y1 - 2020/12/1

N2 - Fusarium oxysporum is a cross-kingdom fungal pathogen that infects plants and humans. Horizontally transferred lineage-specific (LS) chromosomes were reported to determine host-specific pathogenicity among phytopathogenic F. oxysporum. However, the existence and functional importance of LS chromosomes among human pathogenic isolates are unknown. Here we report four unique LS chromosomes in a human pathogenic strain NRRL 32931, isolated from a leukemia patient. These LS chromosomes were devoid of housekeeping genes, but were significantly enriched in genes encoding metal ion transporters and cation transporters. Homologs of NRRL 32931 LS genes, including a homolog of ceruloplasmin and the genes that contribute to the expansion of the alkaline pH-responsive transcription factor PacC/Rim1p, were also present in the genome of NRRL 47514, a strain associated with Fusarium keratitis outbreak. This study provides the first evidence, to our knowledge, for genomic compartmentalization in two human pathogenic fungal genomes and suggests an important role of LS chromosomes in niche adaptation.

AB - Fusarium oxysporum is a cross-kingdom fungal pathogen that infects plants and humans. Horizontally transferred lineage-specific (LS) chromosomes were reported to determine host-specific pathogenicity among phytopathogenic F. oxysporum. However, the existence and functional importance of LS chromosomes among human pathogenic isolates are unknown. Here we report four unique LS chromosomes in a human pathogenic strain NRRL 32931, isolated from a leukemia patient. These LS chromosomes were devoid of housekeeping genes, but were significantly enriched in genes encoding metal ion transporters and cation transporters. Homologs of NRRL 32931 LS genes, including a homolog of ceruloplasmin and the genes that contribute to the expansion of the alkaline pH-responsive transcription factor PacC/Rim1p, were also present in the genome of NRRL 47514, a strain associated with Fusarium keratitis outbreak. This study provides the first evidence, to our knowledge, for genomic compartmentalization in two human pathogenic fungal genomes and suggests an important role of LS chromosomes in niche adaptation.

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The genome of opportunistic fungal pathogen Fusarium oxysporum carries a unique set of lineage-specific chromosomes

Abstract

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