Conservation and Expansion of Transcriptional Factor Repertoire in the Fusarium oxysporum Species Complex

Yu, Houlin; Yang, He; Haridas, Sajeet; Hayes, Richard D.; Lynch, Hunter; Andersen, Sawyer; Newman, Madison; Li, Gengtan; Martínez-Soto, Domingo; Milo-Cochavi, Shira; Hazal Ayhan, Dilay; Zhang, Yong; Grigoriev, Igor V.; Ma, Li-Jun

doi:10.3390/jof9030359

Conservation and Expansion of Transcriptional Factor Repertoire in the Fusarium oxysporum Species Complex

Journal Article · Wed Mar 15 00:00:00 EDT 2023 · Journal of Fungi

DOI:https://doi.org/10.3390/jof9030359· OSTI ID:2470574

Yu, Houlin ^[1]; Yang, He ^[1]; ^[2]; ^[2]; Lynch, Hunter ^[1]; Andersen, Sawyer ^[1]; Newman, Madison ^[1]; Li, Gengtan ^[1]; Martínez-Soto, Domingo ^[1]; Milo-Cochavi, Shira ^[1]; ^[1]; Zhang, Yong ^[1]; Grigoriev, Igor V. ^[2]; ^[1]

University of Massachusetts, Amherst, MA (United States)
Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States); University of California, Berkeley, CA (United States)

The Fusarium oxysporum species complex (FOSC) includes both plant and human pathogens that cause devastating plant vascular wilt diseases and threaten public health. Each F. oxysporum genome comprises core chromosomes (CCs) for housekeeping functions and accessory chromosomes (ACs) that contribute to host-specific adaptation. This study inspects global transcription factor profiles (TFomes) and their potential roles in coordinating CC and AC functions to accomplish host-specific interactions. Remarkably, we found a clear positive correlation between the sizes of TFomes and the proteomes of an organism. With the acquisition of ACs, the FOSC TFomes were larger than the other fungal genomes included in this study. Among a total of 48 classified TF families, 14 families involved in transcription/translation regulations and cell cycle controls were highly conserved. Among the 30 FOSC expanded families, Zn2-C6 and Znf_C2H2 were most significantly expanded to 671 and 167 genes per family including well-characterized homologs of Ftf1 (Zn2-C6) and PacC (Znf_C2H2) that are involved in host-specific interactions. Manual curation of characterized TFs increased the TFome repertoires by 3% including a disordered protein Ren1. RNA-Seq revealed a steady pattern of expression for conserved TF families and specific activation for AC TFs. Functional characterization of these TFs could enhance our understanding of transcriptional regulation involved in FOSC cross-kingdom interactions, disentangle species-specific adaptation, and identify targets to combat diverse diseases caused by this group of fungal pathogens.

View Accepted Manuscript (DOE)

Research Organization:: Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)

Sponsoring Organization:: National Institutes of Health (NIH); Natural Science Foundation (NSF); USDA; USDOE Office of Science (SC), Basic Energy Sciences (BES). Scientific User Facilities (SUF)

Grant/Contract Number:: AC02-05CH11231

OSTI ID:: 2470574

Journal Information:: Journal of Fungi, Journal Name: Journal of Fungi Journal Issue: 3 Vol. 9; ISSN 2309-608X

Publisher:: MDPICopyright Statement

Country of Publication:: United States

Language:: English

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59 BASIC BIOLOGICAL SCIENCES
TFome
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Conservation and Expansion of Transcriptional Factor Repertoire in the Fusarium oxysporum Species Complex

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