Related Experiment Video
Updated: Jun 17, 2026
09:13
Gene Expression Profiling of Infecting Microbes Using a Digital Bar-coding Platform
Published on: January 13, 2016
The filamentous fungal gene expression database (FFGED)
Zhang Zhang1, Jeffrey P Townsend
1Department of Ecology and Evolutionary Biology, Yale University, 165 Prospect Street, New Haven, CT 06520, USA. Zhang.Zhang@Yale.edu
Fungal Genetics and Biology : FG & B
|December 23, 2009
Summary
The filamentous fungal gene expression database (FFGED) is a new, free resource for researchers. It facilitates data sharing and analysis for fungal gene expression studies, enhancing collaborative research.
Area of Science:
- Mycology
- Genomics
- Bioinformatics
Background:
- Filamentous fungal gene expression assays are crucial for understanding cellular regulation.
- Existing resources may lack comprehensive, collaborative features for fungal gene expression data.
Purpose of the Study:
- To develop a novel, comprehensive, and free database for filamentous fungal gene expression data.
- To create a collaborative platform that maximizes data sharing and correlation across experiments.
Main Methods:
- Construction of the filamentous fungal gene expression database (FFGED).
- Implementation of a user-friendly web interface with AJAX technology.
- Development of tools for data submission, sharing, retrieval, and visualization.
Main Results:
- FFGED provides organized management of gene expression data, including metadata, experimental design, raw data, normalized details, and analysis results.
- The database functions as an "active experiment" platform, allowing continuous data submission.
- FFGED connects similar experiments, fostering data sharing and correlation among diverse users and experimental designs.
Conclusions:
- FFGED serves as a valuable, collaborative resource for the scientific community studying filamentous fungal gene expression.
- The platform enhances research by facilitating efficient data management, sharing, and analysis.
- The database promotes a deeper understanding of systemic cellular regulation in filamentous fungi.
Related Concept Videos
02:11Reporter Genes
Reporter genes are a type of protein-coding gene that are often tagged to a gene of interest. Once inside a target cell, reporter genes usually produce visually identifiable characteristics like fluorescence and luminescence when expressed along with the gene of interest. Thus, reporter genes “report” the presence or absence of genes of interest in an organism, determine the gene expression pattern, or track the physical location of a DNA segment or protein in the cell.
Commonly used reporter...
Commonly used reporter...
01:28Fungal Phylum Microsporidia
Microsporidia are a group of obligate intracellular fungi that were initially classified as protists but were later reclassified based on phylogenetic, molecular, and structural evidence linking them to the Chytridiomycota. These unicellular, non-motile organisms are highly specialized parasites that infect a wide range of animal hosts, including humans. They have evolved extensive genomic and metabolic reductions, making them highly dependent on their hosts for survival.Morphology and Genomic...
01:26Fungal Phylum Basidiomycota
Basidiomycota is a diverse phylum of fungi that includes ecologically significant decomposers such as white rot fungi, symbionts like mycorrhizal fungi, plant pathogens such as rusts and smuts, and edible species like Agaricus bisporus (the common button mushroom). These fungi play crucial roles in nutrient cycling, symbiotic relationships, and even human health. Their defining feature is the basidium, a microscopic club-shaped structure responsible for producing basidiospores.Fruiting Bodies...
01:17Gene Regulation During Sporulation
Sporulation is a complex developmental process that allows certain Gram-positive bacteria, such as Bacillus subtilis and Clostridium species, to survive extreme environmental conditions. This process is tightly regulated by a series of signaling cascades and transcriptional controls, ensuring the formation of a highly resistant endospore.Sporulation is triggered by unfavorable conditions, such as nutrient depletion, and is governed by a phosphorelay system. One of the sensor kinases, such as...
01:29Fungal Group Zygomycota
Zygomycota, previously classified as a distinct fungal group, are primarily terrestrial, saprophytic molds that play a crucial role as decomposers. Recent phylogenetic studies have revealed that these fungi are now divided into two major clades — Mucoromycota, which includes many symbiotic species, and Zoopagomycota, which primarily consists of parasitic and pathogenic fungi. These groups exhibit distinct ecological roles and reproductive strategies while sharing key structural and...
01:28Fungal Phylum Ascomycota
Phylum Ascomycota, a major division within the subkingdom Dikarya, comprises a diverse range of fungal species, including both unicellular yeasts and filamentous molds such as Aspergillus and Penicillium. These fungi thrive in a variety of habitats, from aquatic ecosystems to terrestrial environments, playing crucial ecological and economic roles.Morphology and ReproductionThe defining characteristic of Ascomycetes, commonly referred to as sac fungi, is the ascus—a sac-like structure that...