A5030893447- Plant Molecular Biology Research
- Biofuel production and bioconversion
- Photosynthetic Processes and Mechanisms
- Plant Reproductive Biology
- Microbial Metabolic Engineering and Bioproduction
- Plant tissue culture and regeneration
- Fungal and yeast genetics research
- Lipid metabolism and biosynthesis
- Enzyme Production and Characterization
- Polysaccharides and Plant Cell Walls
- Yeasts and Rust Fungi Studies
- Mycorrhizal Fungi and Plant Interactions
- Plant Stress Responses and Tolerance
- Greenhouse Technology and Climate Control
- Plant Pathogens and Fungal Diseases
- Light effects on plants
- Plant Physiology and Cultivation Studies
- Chromosomal and Genetic Variations
- Helminth infection and control
- interferon and immune responses
- Lignin and Wood Chemistry
- Genomics and Phylogenetic Studies
- Viral Infections and Vectors
- Heavy Metal Exposure and Toxicity
- Lichen and fungal ecology
Joint Genome Institute
2021-2024
Lawrence Berkeley National Laboratory
2021-2024
Yunnan Academy of Agricultural Sciences
2021-2024
Harbin Medical University
2021-2024
Jiangsu University
2021-2024
Nanjing Medical University
2021-2024
University of California, Berkeley
2022
Plant Gene Expression Center
2022
Fujian Medical University
2021
University of Chinese Academy of Sciences
2021
Fungi play a critical role in the global carbon cycle by degrading plant polysaccharides to small sugars and metabolizing them as energy sources. We mapped well-established sugar metabolic network of Aspergillus niger five taxonomically distant species (Aspergillus nidulans, Penicillium subrubescens, Trichoderma reesei, Phanerochaete chrysosporium Dichomitus squalens) using an orthology-based approach. The diversity metabolism correlates well with taxonomic distance fungi. pathways are...
Plant biomass is one of the most abundant renewable carbon sources, which holds great potential for replacing current fossil-based production fuels and chemicals. In nature, fungi can efficiently degrade plant polysaccharides by secreting a broad range carbohydrate-active enzymes (CAZymes), such as cellulases, hemicellulases, pectinases. Due to crucial role biomass-degrading (PBD) CAZymes in fungal growth related biotechnology applications, investigation their genomic diversity...
Genetic regulation mechanisms rely on complex transcriptional networks that are often difficult to decipher. The study of transcription factor (TF) binding sites and their targets has traditionally faced scalability challenges, hindering comprehensive cistrome analyses. However, the development DNA affinity purification sequencing (DAP-seq) technique allowed unprecedented large-scale studies at genome-wide level TF with high reproducibility. In this study, we apply human opportunistic...
The current impetus towards a sustainable bio-based economy has accelerated research to better understand the mechanisms through which filamentous fungi convert plant biomass, valuable feedstock for biotechnological applications. Several transcription factors have been reported control polysaccharide degradation and metabolism of resulting sugars in fungi. However, little is known about their individual contributions, interactions crosstalk. D-galactose hexose sugar present mainly...
Recombination is often suppressed at sex-determining loci in plants and animals, self-incompatibility or mating-type fungi. In fungal ascomycetes, recombination suppression around the locus associated with pseudo-homothallism, i . e production of self-fertile dikaryotic sexual spores carrying two opposite mating types. This has been well studied species complexes from different families Sordariales : Podospora anserina Neurospora tetrasperma However, it unclear whether this intriguing...
ABSTRACT Plants depend on the combined action of a shoot-root-soil system to maintain their anchorage soil. Mechanical failure any component this results in lodging, permanent and irreversible inability vertical orientation. Models grass crops identify compressive strength roots near soil surface as key determinant resistance lodging. Indeed, studies disparate grasses report ring thickened, sclerenchyma cells surrounding root cortex, present only at base nodal roots. Here, investigation...
Summary Transcription factors (TFs) play a central role in regulating gene expression, process fundamental to cellular function. Characterizing transcription factor binding sites (TFBSs) is essential for understanding TF functions and identifying target genes, but many predicted TFBSs lack clear biological significance. We generated an atlas of across ten flowering plants demonstrated that conserved are strongly enriched genomic epigenomic signatures functional regulatory elements. uncovered...
Abstract A system for co-cultivation of anaerobic fungi with bacteria was established based on lactate cross-feeding to produce butyrate and butanol from plant biomass. Several co-culture formulations were assembled that consisted (Anaeromyces robustus, Neocallimastix californiae, or Caecomyces churrovis) the bacterium Clostridium acetobutylicum. Co-cultures grown simultaneously (e.g., ‘one pot’), compared cultures where cultured in fungal hydrolysate sequentially. Fungal hydrolysis...
Parasitic helminths, taxonomically comprising trematodes, cestodes, and nematodes, are multicellular invertebrates widely disseminated in nature have afflicted people continuously for a long time. Helminths play potent roles the host through generating variety of novel molecules, including some excretory/secretory products others that involved intracellular material exchange information transfer as well initiation or stimulation immune metabolic activation. The helminth-derived molecules...
Abstract Deciduous woody plants like poplar (Populus spp.) have seasonal bud dormancy. It has been challenging to simultaneously delay the onset of dormancy in fall and advance break spring, as dormancy, were thought be controlled by different genetic factors. Here, we demonstrate that heterologous expression REVEILLE1 gene (named AaRVE1) from Agave (Agave americana) not only delays but also accelerates field trials. AaRVE1 increases biomass yield 166% greenhouse. Furthermore, reveal...
Filamentous fungi degrade complex plant material to its monomeric building blocks, which have many biotechnological applications. Transcription factors play a key role in biomass degradation, but little is known about their interactions the regulation of polysaccharide degradation. Here, we deepened knowledge storage regulators AmyR and InuR Aspergillus niger. controls starch while involved sucrose inulin utilization. In our study, phenotypes A. niger parental, ΔamyR, ΔinuR ΔamyRΔinuR...
Brucellosis is primarily a disease of domestic animals in which the bacteria localizes to fetal tissues such as embryonic trophoblast cells and fluids containing erythritol, stimulates Brucella spp. growth. The utilization erythritol characteristic genus Brucella. ery operon contains four genes (eryA, eryB, eryC eryD) for plays major role survival multiplication objective present study was conduct preliminary characterization differential expression at several time points after infected...
Abstract The phytochrome (phy)-PHYTOCHROME-INTERACTING FACTOR (PIF) sensory module perceives and transduces light signals to direct target genes (DTGs), which then drive the adaptational responses in plant growth development appropriate prevailing environment. These include first exposure of etiolated seedlings sunlight upon emergence from subterranean darkness change color that is filtered through, or reflected from, neighboring vegetation (“shade”). Previously, we identified three broad...
ABSTRACT Recombination is often suppressed at sex-determining loci in plants and animals, self-incompatibility or mating-type fungi. In fungal ascomycetes, recombination suppression around the locus associated with pseudo-homothallism, i . e ., production of self-fertile dikaryotic sexual spores carrying two opposite mating types. This has been well studied species complexes from different families Sordariales: Podospora anserina Neurospora tetrasperma However, it unclear whether this...
Abstract The Salicaceae family is of growing interest in the study dioecy plants because sex determination region (SDR) has been shown to be highly dynamic, with differing locations and heterogametic systems between species. Without ability transform regenerate Salix tissue culture, previous studies investigating mechanisms regulating genus have limited genome resequencing differential gene expression, which are mostly descriptive nature, functional validation candidate genes not yet...
Selenium (Se) is an essential trace element for maintaining human health, with significant antioxidant and immunoregulatory functions. Inadequate Se intake may be associated Keshan disease, Kashin-Beck hypothyroidism. However, effective indicators scientifically guiding supplementation in Se-deficient populations are still lacking.
Pleurotus ostreatus is a white-rot fungus that can degrade lignin in preferential manner using variety of extracellular enzymes, including manganese and versatile peroxidases (encoded by the vp1-3 mnp1-6 genes, respectively). This also secretes family structurally related small secreted proteins (SSPs) encoded ssp1-6 genes. Using RNA sequencing (RNA-seq), we determined ssp4 ssp6 are predominant members this gene were expressed P. during first three weeks growth on wheat straw. Downregulation...
Abstract The phytochrome (phy)-PIF (Phytochrome Interacting Factor) sensory module perceives and transduces light signals to Direct-Target Genes (DTGs), which then drive the adaptational responses in plant growth development, appropriate prevailing environment. These include first exposure of etiolated seedlings sunlight upon emergence from subterranean darkness, change color that is filtered through, or reflected from, neighboring vegetation (‘shade’). Previously, we identified three broad...