Deciphering the Cryptic Genome: Genome-wide Analyses of the Rice Pathogen Fusarium fujikuroi Reveal Complex Regulation of Secondary Metabolism and Novel Metabolites

@article{Wiemann2013DecipheringTC,
  title={Deciphering the Cryptic Genome: Genome-wide Analyses of the Rice Pathogen Fusarium fujikuroi Reveal Complex Regulation of Secondary Metabolism and Novel Metabolites},
  author={Philipp Wiemann and C. Sieber and K. W. von Bargen and L. Studt and Eva-Maria Niehaus and J. Espino and K. Hu{\ss} and C. Michielse and Sabine Albermann and Dominik Wagner and S. V. Bergner and L. Connolly and Andreas Fischer and G. Reuter and K. Kleigrewe and T. Bald and B. Wingfield and R. Ophir and S. Freeman and M. Hippler and Kristina M Smith and Daren W Brown and R. Proctor and M. M{\"u}nsterk{\"o}tter and M. Freitag and H. Humpf and U. G{\"u}ldener and B. Tudzynski},
  journal={PLoS Pathogens},
  year={2013},
  volume={9}
}
The fungus Fusarium fujikuroi causes “bakanae” disease of rice due to its ability to produce gibberellins (GAs), but it is also known for producing harmful mycotoxins. However, the genetic capacity for the whole arsenal of natural compounds and their role in the fungus' interaction with rice remained unknown. Here, we present a high-quality genome sequence of F. fujikuroi that was assembled into 12 scaffolds corresponding to the 12 chromosomes described for the fungus. We used the genome… Expand
Secondary metabolism in Fusarium fujikuroi: strategies to unravel the function of biosynthetic pathways
TLDR
It is demonstrated that deletion and over-expression of histone-modifying genes is a powerful tool to activate silent gene clusters and to discover their products, and several examples where linking known metabolites to the respective biosynthetic genes has been achieved. Expand
Interplay between pathway-specific and global regulation of the fumonisin gene cluster in the rice pathogen Fusarium fujikuroi
TLDR
It is demonstrated that both GATA-type transcription factors are essential for full activation of the FUM gene cluster and loss of one of them obstructs the pathway-specific transcription factor Fum21 to fully activate expression of FUM cluster genes. Expand
Apicidin F: Characterization and Genetic Manipulation of a New Secondary Metabolite Gene Cluster in the Rice Pathogen Fusarium fujikuroi
TLDR
A new non-ribosomal peptide synthetase (NRPS) gene cluster that is responsible for the production of the cyclic tetrapeptide apicidin F (APF) is characterized and a model of the APF biosynthetic pathway is provided based on chemical identification of derivatives in the cultures of deletion mutants. Expand
Analysis of the global regulator Lae1 uncovers a connection between Lae1 and the histone acetyltransferase HAT1 in Fusarium fujikuroi
TLDR
A deeper insight into the genome-wide regulatory impact of Lae1 on secondary metabolism is presented and over-expression of lae1 resulted in de-repression of GA biosynthetic genes under otherwise repressing high nitrogen conditions demonstrating that the nitrogen repression is overcome. Expand
Whole Genome Sequencing of Fusarium fujikuroi Provides Insight into the Role of Secretory Proteins and Cell Wall Degrading Enzymes in Causing Bakanae Disease of Rice
TLDR
Comparative genomic analysis of Fusarium fujikuroi isolates and identification of the secretary proteins of the fungus involved in rice pathogenesis offers a better understanding of F. fujkuroi genome and will help to enhance the knowledge on Fus aquarium fuj Kikuroi–rice interactions. Expand
Comparative genomics of geographically distant Fusarium fujikuroi isolates revealed two distinct pathotypes correlating with secondary metabolite profiles
TLDR
Analysis of additional field isolates confirmed the strong correlation between the pathotype (bakanae or stunting/withering), and the ability to produce either GAs or fumonisins. Expand
The global regulator FfSge1 is required for expression of secondary metabolite gene clusters but not for pathogenicity in Fusarium fujikuroi.
The plant pathogenic fungus Fusarium fujikuroi is the causal agent of bakanae disease on rice due to its ability to produce gibberellins. Besides these phytohormones, F. fujikuroi is able to produceExpand
Whole genome and transcriptome analysis reveal adaptive strategies and pathogenesis of Calonectria pseudoreteaudii to Eucalyptus
TLDR
The genome of C. pseudoreteaudii is examined to provide further understanding on the mechanism of pathogenesis in Calonectria, which seems to employ membrane transporters and degradation enzymes to detoxify Eucalyptus phytoalexins. Expand
Correction: Genome and Transcriptome Analysis of the Fungal Pathogen Fusarium oxysporum f. sp. cubense Causing Banana Vascular Wilt Disease
TLDR
Foc genome sequences will facilitate us to identify pathogenicity mechanism involved in the banana vascular wilt disease development, and develop effective methods for managing the Banana vascular wilts disease, including improvement of disease resistance in banana. Expand
Comparative transcriptome and proteome analysis reveals a global impact of the nitrogen regulators AreA and AreB on secondary metabolism in Fusarium fujikuroi
TLDR
The first genome-wide transcriptome and proteome analysis that compared the wild type and deletion mutants of the two major nitrogen regulators AreA and AreB shows that AreB acts not simply as an antagonist of AreA counteracting the expression of AreB target genes as suggested based on the yeast model. Expand
...
1
2
3
4
5
...

References

SHOWING 1-10 OF 185 REFERENCES
Phylogenomic and functional domain analysis of polyketide synthases in Fusarium.
TLDR
The analyses indicate that variation in the Fusarium PKS gene family is due to gene duplication and loss events as well as enzyme gain-of-function due to the acquisition of new domains or of loss of function due to nucleotide mutations. Expand
Lifestyle transitions in plant pathogenic Colletotrichum fungi deciphered by genome and transcriptome analyses
TLDR
Findings show that preinvasion perception of plant-derived signals substantially reprograms fungal gene expression and indicate previously unknown functions for particular fungal cell types. Expand
Functional Analysis of the Polyketide Synthase Genes in the Filamentous Fungus Gibberella zeae (Anamorph Fusarium graminearum)
TLDR
This is the first study to genetically characterize a complete set of PKS genes from a single organism and reveal diverse expression patterns during grain colonization, plant colonization, sexual development, and mycelial growth. Expand
Comparison of transcriptome technologies in the pathogenic fungus Aspergillus fumigatus reveals novel insights into the genome and MpkA dependent gene expression
TLDR
High-throughput analysis of MpkA-dependent gene expression confirmed many previous findings that this kinase is important for regulating many genes involved in metabolic pathways and is more suitable for the creation of extensive datasets. Expand
Genome Sequencing and Comparative Transcriptomics of the Model Entomopathogenic Fungi Metarhizium anisopliae and M. acridum
TLDR
W Whole-genome analyses indicate that the genome structures of these two species are highly syntenic and suggest that the genus Metarhizium evolved from plant endophytes or pathogens, andTranscriptional analysis of both fungi during early infection processes provided further insights into the genes and pathways involved in infectivity and specificity. Expand
Diversity, regulation, and evolution of the gibberellin biosynthetic pathway in fungi compared to plants and bacteria.
TLDR
The current understanding of the GA biosynthesis pathway is summarized, specifically the genes and enzymes involved as well as gene regulation and localization in the genomes of different fungi and compare it with that in higher and lower plants and bacteria. Expand
Functional characterization, sequence comparisons and distribution of a polyketide synthase gene required for perithecial pigmentation in some Fusarium species
TLDR
Southern blot analysis indicated that PGL1 occurs widely within the genus Fusarium including species with no known sexual stage and that it is required for the production of the dark pigment in perithecial walls. Expand
A gene cluster containing two fungal polyketide synthases encodes the biosynthetic pathway for a polyketide, asperfuranone, in Aspergillus nidulans.
TLDR
The genome sequencing of Aspergillus species including A. nidulans reveals that the products of many of the secondary metabolism pathways in these fungi have not been elucidated, and a series of gene deletions has allowed it to be confirmed that the two PKSs together with five additional genes comprise the asperfuranone biosynthetic pathway. Expand
The Sfp-Type 4′-Phosphopantetheinyl Transferase Ppt1 of Fusarium fujikuroi Controls Development, Secondary Metabolism and Pathogenicity
TLDR
Functional characterization provides evidence that both proteins are involved in iron acquisition and are liable to transcriptional repression of the homolog of the Aspergillus GATA-type transcription factor SreA under iron-replete conditions. Expand
Comparative genomics reveals mobile pathogenicity chromosomes in Fusarium
TLDR
Comparison of genomes of three phenotypically diverse Fusarium species revealed lineage-specific genomic regions in F. oxysporum that include four entire chromosomes and account for more than one-quarter of the genome, putting the evolution of fungal pathogenicity into a new perspective. Expand
...
1
2
3
4
5
...