Fusarium
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA281707 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR2149470.fastq.gz | Fastqsanger.gz | |||
| SRR2149480.fastq.gz | Fastqsanger.gz | |||
| SRR2149490.fastq.gz | Fastqsanger.gz | |||
| SRR2149500.fastq.gz | Fastqsanger.gz | |||
| SRR2149510.fastq.gz | Fastqsanger.gz |
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Project description:New Fusarium specific primers for metabarcoding studies in environmental samples
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Project description:We performed RNA-seq analysis of the root transcriptional response to Fusarium oxysporum f.sp. vasinfectum (FOV) race 4 (FOV4) infection in Gossypium barbadense, also known as Pima cotton. Susceptible Gossypium barbadense inbred lines Pima S-7 (PI 560140) and Pima 3-79 susceptible to Fusarium wilt [Fusarium oxysporum f.sp. vasinfectum (FOV)] race 4 (FOV4), and Pima S-6 (PI 608346) which is resistant to FOV4 infection, were used for the preparation of cDNA libraries and further RNA-seq analyses. An isolate of FOV4 (FOV CA-14) from a naturally infested field in Fresno County in the San Joaquin Valley, California was used in this study.
2023-11-30 | GSE233711 | GEO
Project description:Fusarium head blight (FHB), caused by Fusarium graminearum, is a detrimental disease that affects small grains such as wheat around the world. Management of FHB is difficult, and improved methods of surveillance as well as a better understanding of pathogen aggressiveness are needed for improved control. F. graminearum disease severity varies depending on the resistance of the host genotype. In this study, we used the field pathogenomics method to investigate gene expression and population structure of isolates collected from wheat lines of varying resistance levels (susceptible, intermediate, and resistant) as well as an axenic control. Differential gene expression was found among isolates collected from different host genotypes. Candidate gene sets were identified for both F. graminearum infection of specific host genotypes and general infection to wheat. Population structure of isolates from different resistance level sources was the same, with all isolates belonging to the NA1 population.
2019-04-30 | GSE127334 | GEO
Project description:Fusarium genome sequencing and assembly for mimp comparison in the Fusarium genus
| PRJNA389502 | ENA
Project description:Fusarium graminearum (teleomorph Gibberella zeae) is a prominent pathogen that infects major cereal crops, such as wheat, barley, and maize. Conidiogenesis had been intensively studied in Aspergillus nidulans and regulatory pathway genes have been known to regulate conidiogenesis in stage specific manner. We reported the functional analyses of flbD, abaA, and wetA orthologs in F. graminearum. To understand genome-wide transcriptional profiling of conidiation, we employed RNA-seq of the wild-type Fusarium graminearum Z-3639 and each gene deletion mutants with three time courses (0 h, 6 h and 12 h after induction of conidiogenesis). AbaA experiment: 6 samples examined: 0 h, 6 h and 12 h after induction of conidiogenesis of Fusarium graminearum Z-3639 wild type and ΔabaA(ΔabaA::gen) mutant strains WetA experiment: 3 samples examined: 0 h, 6 h and 12 h after induction of conidiogenesis of Fusarium graminearum ΔwetA(ΔwetA::gen) mutant strains flbD experiment: 3 samples examined: 0 h, 6 h and 12 h after induction of conidiogenesis of Fusarium graminearum ΔflbD(ΔflbD::gen) mutant strains
2013-11-10 | E-GEOD-46133 | biostudies-arrayexpress
Project description:Soil fungi are key players in biomass recycling. Predation influences fungal communities and modulates ecosystem services provided by fungi. Fungal chemical defense against predation comprises toxic proteins and secondary metabolites. The intent of this experiment was to generate transcriptomic information when a fungus, in this case Fusarium graminearum, was in the presence of a predator (Folsomia candida). We assumed that defense metabolites are synthesized on demand and transcriptome analysis can be used to pinpoint genes of defense pathways. To carry out the experiment, cultures of F. graminearum were subjected to grazing by springtail F. candida. After 48 hours at 15°C in dark, springtails were removed, and RNA was extracted from mycelium. Controls were incubated under the same conditions without animals. Each group consisted of four replicates. Strand-specific cDNA libraries were prepared using Illumina’s TruSeq stranded mRNA kit (75 bp paired-end) and sequenced on Illumina NextSeq 500V2.
2018-07-01 | E-MTAB-6939 | biostudies-arrayexpress
Project description:Fusarium fujikuroi is a biotechnologically important fungus due to its almost unique ability to produce gibberellic acids (GAs), a family of phytohormones. The fungus was described about 100 years ago as the causative agent of Bakanae (M-bM-^@M-^\foolish seedlingM-bM-^@M-^]) disease of rice. Apart from GAs, the fungus is known to produce pigments and mycotoxins, but the biosynthetic genes are known for only eight products. Here we present a high-quality genome sequence of the first member of the Gibberella fujikuroi species complex (GFC) that allowed de novo genome assembly with 12 scaffolds corresponding to the 12 chromosomes. In this work we focused on identification of all potential secondary metabolism-related gene clusters and their regulation in response to nitrogen availability by transcriptome, proteome, HPLC-FTMS and ChIP-seq analyses. We show that most of the cluster genes are regulated in a nitrogen-dependent manner, and that expression profiles fit to proteome and ChIP-seq data for some but not all clusters. Comparison with genomes of all available Fusarium species, including the recently sequenced F. mangiferae and F. circinatum, showed only a small number of common gene clusters and provides new insights into the divergence of secondary metabolism in the genus Fusarium. Phylogenetic analyses suggest that some gene clusters were acquired by horizontal gene transfer, while others were present in ancient Fusarim species and have evolved differently by gene duplications and losses. One polyketide synthase (PKS) and one non-ribosomal peptide synthetase (NRPS) gene cluster are unique for F. fujikuroi. Their products were identified by combining overexpression of cluster genes with HPLC-FTMS-based analyses. In planta expression studies suggest a specific role of the PKS19 product in rice infection. Our results indicate that comparative genomics together with the used genome-wide experimental approaches is a powerful tool to uncover new secondary metabolites and to understand their regulation at the transcriptional, translational and epigenetic levels. Examination of 3 different histone modifications, with 2 growth conditions for one of the modifications (Total of 4 samples)
2013-10-16 | E-GEOD-46033 | biostudies-arrayexpress
Project description:Fusarium head blight (FHB) is a major disease of cereal crops caused by the fungus Fusarium graminearum (Fg). FHB affects the flowering heads (or spikes) and developing seeds. This study compare the gene expression profile in wheat spikelets (spk 2) inoculated with either water (mock treatment) or a pathogenic strain of Fusarium graminearum (WT); spikelets 2 were inoculated 24 hrs after a neighbour spikelet (spk 0) was treated with either water or F. graminerum mutant strain Tri6Δ or NoxABΔ. Spikelets 2 were sampled 8 and 24 hrs after the second treatment.
2015-05-28 | GSE55653 | GEO
Project description:Resistance mechanisms of wheat to Fusarium graminearum are still poorly understood. Multiple reports have investigated transcriptomic differences between resistant and susceptible genotypes. To investigate the genetic determinants underlying the two major contributor QTL Fhb1 and Qfhs.ifa-5A, we generated a set of near-isogenic lines, that we have used for transcriptomic studies using the Affymetrix wheat GeneChip®: 4 near-isogenic lines (BC5F2) derived from a cross of CM82036 and cv Remus (susceptible recurrent parent) and the resistant parent CM82036 have been inoculated with Fusarium spore suspension or water as control at anthesis. Samples have been taken at 3 timepoints 8, 24 and 72 hours after inoculation. Five wheat heads per condition were pooled into one sample, that has been used for RNA preparation. Including 3 replicates a total of 90 microarrays have been hybridized. Our results identify a wide variety of genes (631 transcripts) that are differentially regulated for Fusarium graminearum in all genotypes after 72 h and 339 genes that are upregulated only in lines without Qfhs.ifa.5A. Few genes were found differentially regulated for Fusarium and QTL. Many interesting candidates emerge from the set of QTL-specific genes that are constitutively expressed when comparing water-treated samples. ****[PLEXdb(http://www.plexdb.org) has submitted this series at GEO on behalf of the original contributor, Wolfgang Schweiger. The equivalent experiment is TA41 at PLEXdb.]
2013-05-17 | GSE43706 | GEO
Project description:Fusarium head blight (FHB) is a major disease of cereal crops caused by the fungus Fusarium graminearum (Fg). FHB affects the flowering heads (or spikes). This study compare the gene expression profile in wheat spikelets from the resistant spring wheat cultivar NuyBay inoculated with water (H2O) or Fg.
2015-06-03 | GSE54552 | GEO