Ontology highlight
ABSTRACT:
PROVIDER: PRJNA791178 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:We report the transcriptomic comparisions between key processes required for various stages of fungal carnivory in nematode-trapping fungus Arthrobotrys oligospora when induced with nematodes. The reference assembly used for remapping is A. oligospora TWF154 (GenBank assembly accession: GCA_004768765.1)
2023-07-01 | GSE233568 | GEO
Project description:We report the transcriptomic comparisions between ku70 control and ste12 mutant strains in nematode-trapping fungus Arthrobotrys oligospora when induced with nematodes. Fungal Ste12 transcription factor and the upstream MAPK cascade are highly conserved and plays a role in host sensing and pathogenesis in various fungal pathogens. Identification of Ste12-dependent in A. oligospora may provide further insights into the molecular mechanisms of nematode-sensing and trap morphogenesis. The reference assemly used for remapping is A. oligospora TWF154 (GenBank assembly accession: GCA_004768765.1)
2020-10-24 | GSE159974 | GEO
Project description:Arthrobotrys oligospora, a widely distributed nematode-trapping fungus, utilises adhesive mycelial nets (traps) to capture nematodes. As key components of the MAPK cascade, Sho1 and Opy2 are critical in the fungal stress response. This study examined the roles of homologous Sho1 (AoSho1) and Opy2 (AoOpy2) through gene knockdown, phenotypic analysis, and multi-omics approaches. The results revealed that knockdown of Aosho1 and Aoopy2 led to reduced mycelial growth, a significant decrease in spore production, trap formation, and nematode predation capacity. Furthermore, deletion of Aosho1 and Aoopy2 increased autophagic activity and heightened sensitivity to osmotic stress. Transcriptome analysis indicated that AoOpy2 functions as a multifaceted regulator in fungal growth, development, and environmental adaptation. Metabolomics data also suggested that AoSho1 and AoOpy2 are involved in several metabolic pathways. In conclusion, AoSho1 and AoOpy2 are essential for mycelial growth, osmoregulation, and the pathogenicity of A. oligospora. This study lays the groundwork for understanding the roles and potential mechanisms of the MAPK signalling pathway in the development and pathogenicity of nematode-trapping fungi.
2025-08-27 | GSE306156 | GEO
Project description:Rab GTPases regulate vesicle trafficking in organisms and play crucial roles in growth and development. Arthrobotrys oligospora is a representative species of nematode-trapping (NT) fungi, it can produce trapping devices for nematode predation. Our previous study found that deletion of Aorab7A abolished the trap formation and sporulation. Here, we investigated the regulatory mechanism of AoRab7A using transcriptomic, biochemical, and phenotypic comparisons. Transcriptome analysis, yeast library screening, and Y2H assays identified two vacuolar protein sorting (Vps) proteins, AoVps41 and AoVps35, as putative targets of AoRab7A. The deletion of Aovps41 and Aovps35 caused considerable defects in multiple phenotypic traits. We further found a close connection between AoRab7A, homotypic fusion, vacuolar protein sorting, and the retromer involved in vesicle-vacuole fusion, which triggered vacuolar fragmentation. Further transcriptome analysis showed that AoRab7A and AoVps35 play essential roles in many cellular processes and components including proteasomes, autophagy, fatty acid degradation, and ribosomes in A. oligospora. Furthermore, we verified that AoRab7A, AoVps41, and AoVps35 are involved in ribosome and proteasome functions. The absence of these proteins inhibited the biosynthesis of nascent proteins and enhanced ubiquitination. Our findings suggest that AoRab7A can interact with AoVps41 and AoVps35 to mediate vacuolar fusion and influence lipid droplet accumulation, autophagy, stress response, and secondary metabolism. These proteins are especially required for the conidiation and trap development of A. oligospora
2023-10-13 | GSE245014 | GEO
Project description:Purpose: To identify the putative high pathogenicity for fungal infection of nematodes of the nematode-trapping fungus Duddingtonia flagrans, RNA-seq was used to examine the transcriptional responses in three stages with the treatment of extraction of Caenorhabditis elegans. Methods:mRNA of three interaction stages (0h, 12h, 48h) were generated by deep sequencing, in triplicate, using Illumina Hiseq platforme,and 125 bp paired-end reads were generated.Then raw reads were firstly processed by in-house perl scripts and clean reads were obtained by removing reads containing adapter,poly-N and low quality reads. Clean reads were aligned to the reference genome using TopHat V2.0.12 (Duddingtonia flagrans genome with the accession number of MDKD00000000).Then HTSeq and DESeq were used to analyse the gene expression level. Results: After sequencing, 81.8% of the genes predicted in genome of Duddingtonia flagrans were expressed (FPKM>1) in the samples free of treatment of extraction of Caenorhabditis elegans (0h). After treatment with nematode extracts for 12 h , 40.7% of predicted genes, including 1,752 up-regulated genes and 2,072 down-regulated genes, were found to be differentially expressed (padj<0.05, DESeq) compared to the genes at 0 h. Similarly, after treatment with nematode extracts for 48 h, 13.8% of predicted genes, including 673 up-regulated genes and 628 down-regulated genes, were found to be differentially expressed compared to the genes at 12 h.
2019-11-14 | GSE95525 | GEO
Project description:Data from multiple high throughput technologies such as RNA sequencing (RNA-Seq) and protein mass spectrometry (MS/MS) are often used to assist in predicting eukaryote genome features such as genes, splice variants, and single nucleotide variants (SNVs). The genomes of parasitic nematodes causing neglected tropical diseases are often poorly annotated. Angiostrongylus costaricensis, a nematode that causes an intestinal inflammatory disease known as abdominal angiostrongyliasis (AA), is one example. Currently, no drugs or treatments are available for AA, a public health problem in Latin America, especially in Costa Rica and Brazil. The available genome of A. costaricensis, specific to the Costa Rica strain, is a draft version not supported by transcript- or protein-level evidence. This study used RNA-Seq and MS/MS data to perform an in-depth annotation of the A. costaricensis genome. Our prediction supplemented the reference annotation with a) novel coding and non-coding genes; b) pieces of evidence of alternative splicing generating new proteoforms; c) a list of SNVs specific to the Brazilian strain (Crissiumal). To the best of our knowledge, this is the first time that a multi-omics approach has been used to improve the genome annotation of a parasitic nematode. We hope this supplemented genome annotation can assist the future development of drugs to treat AA caused by either Brazil strain (Crissiumal) or Costa Rica strain.
2023-03-11 | PXD034605 | Pride
Project description:Arthrobotrys flagrans, a typical nematode-trapping fungus (NTF) that produces a three-dimensional adhesive network to capture nematodes, has excellent potential for the de-velopment of biocontrol agents against both plant and animal parasitic nematodes. Proteins containing the common fungal extracellular membrane (CFEM) domain are important for the nematodes' trapping by A. flagrans. The loss of AfCFEM1 and AfCFEM3 resulted in a significant upregulation of proteins associated with fungal pathogenicity, forming a denser adhesive material on the trap surface and ultimately increasing nematode mortality. However, the disruption of AfCFEM2 led to the opposite result. Furthermore, the deletion of AfCFEM1-3 not only affected trap morphology, resulting in an increased proportion of irregular traps (i.e., trap cells not fused to the hyphae), but also led to a thinner cell wall of the traps. Besides, the compensate effects among the CFEM family and other families were demonstrated. This study revealed that the AfCFEM1-3 genes in A. flagrans participated in nematode adhesion, cell wall formation, and intercellular communication, providing new insights into the functions of AfCFEM in the process of nematode trapping by NTF.
2025-08-20 | PXD067507 |