A5084840443- Mycorrhizal Fungi and Plant Interactions
- Plant Pathogens and Fungal Diseases
- Plant and fungal interactions
- Lichen and fungal ecology
- Forest Ecology and Biodiversity Studies
- Sarcoidosis and Beryllium Toxicity Research
- Plant Parasitism and Resistance
- Genomics and Phylogenetic Studies
- Chemotherapy-induced cardiotoxicity and mitigation
- Yeasts and Rust Fungi Studies
- Cardiac Imaging and Diagnostics
- Fungal Biology and Applications
- Bryophyte Studies and Records
- Cardiac Structural Anomalies and Repair
- Topological Materials and Phenomena
- Advanced MRI Techniques and Applications
- Surface and Thin Film Phenomena
- Fern and Epiphyte Biology
- Botany and Plant Ecology Studies
- Plant-Microbe Interactions and Immunity
- Quantum optics and atomic interactions
- Photonic Crystals and Applications
- Advanced Optical Imaging Technologies
- Iron oxide chemistry and applications
- Photonic and Optical Devices
Biodiversity Research Center, Academia Sinica
2020-2025
Institute for Biodiversity
2024
University of Florida
2019-2023
Duke University
2015-2022
Academia Sinica
2021
National Taiwan Normal University
2021
Southwest Florida Research
2021
University of Minnesota
2018-2019
University of Minnesota Medical Center
2019
Small genes (<150 nucleotides) have been systematically overlooked in phage genomes. We employ a large-scale comparative genomics approach to predict >40,000 small-gene families ∼2.3 million genome contigs. find that small genomes are approximately 3-fold more prevalent than host prokaryotic Our enriches for translated microbiomes, suggesting the identified coding. More 9,000 encode potentially secreted or transmembrane proteins, 5,000 predicted anti-CRISPR and 500 antimicrobial proteins. By...
Fungi engage in diverse symbiotic relationships with phototrophs. Lichens, complexes involving fungi and either cyanobacteria, green algae, or both, have forming the external layer much of interior. We found an erect thallus resembling a lichen yet unexpected structure composed interwoven cyanobacterial filaments numerous fungal hyphae inserted within individual sheaths, contrasting typical structure. Phylogenetics identified fungus as previously undescribed species, Serendipita...
Plant root-associated microbial symbionts comprise the plant rhizobiome. These microbes function in provisioning nutrients and water to their hosts, impacting health disease. The microbiome is shaped by species, genotype, soil environmental conditions, but contribution of these variables are hard disentangle from each other natural systems. We used bioassay common garden experiments decouple genotype property impacts on fungal bacterial community structure Populus High throughput...
Diverse plant-associated fungi are thought to have symbiotrophic and saprotrophic states because they can be isolated from both dead living plant tissues. However, such tissues often separated in time space, fungal activity at various stages of senescence is rarely assessed directly community studies. We used ribosomal RNA metatranscriptomics detect active communities across a natural gradient within wild-collected gametophytes Dicranum scoparium (Bryophyta) understand the distribution...
High-throughput amplicon sequencing that primarily targets the 16S ribosomal DNA (rDNA) (for bacteria and archaea) Internal Transcribed Spacer rDNA fungi) have facilitated microbial community discovery across diverse environments. A three-step PCR utilizes flexible primer choices to construct library for Illumina has been applied several studies in forest agricultural systems. The protocol, while producing high-quality reads, often yields a large number (up 46%) of reads are unable be...
Premise of the Study The Hymenochaetales are dominated by lignicolous saprotrophic fungi involved in wood decay. However, group also includes bryophilous and terricolous taxa, but their modes nutrition not clear. Here, we investigate patterns carbon nitrogen utilization numerous non‐lignicolous provide a phylogenetic context which these non‐canonical ecological guilds arose. Methods We combined stable isotope analyses δ 13 C 15 N to explore assignment evolution nutritional modes. Clustering...
Introductions and invasions by fungi, especially pathogens mycorrhizal are widespread potentially highly consequential for native ecosystems, but may also offer opportunities linking microbial traits to their ecosystem functions. In particular, treating ectomycorrhizal (EM) invasions, i.e., co-invasions EM fungi host plants, as natural experiments a powerful approach testing how influence critical Forests dominated symbiosis have unique biogeochemistry whereby the extracellular...
Huperzine A (HupA), a lycopodium alkaloid with therapeutic potential for neurodegenerative diseases such as Alzheimer's disease, is found exclusively in some species of the Huperzioideae subfamily Lycopodiaceae. Fungi associated are contributors to HupA biosynthesis, offering promising prospects production. Despite its medical significance, limited knowledge fungal diversity lycophytes and variability production strains have impeded discovery applications HupA-producing fungi. Here, we...
The toxicity of grasses caused by mycotoxins has led to economic losses in the United States due health impact on livestock feeding it. Florida's warm and humid weather is favorable for growth mycotoxin-producing fungi grasses. JECFA provided evaluations risk management some high-risk mycotoxins; however, more research needed Florida determine maximum levels these mycotoxins, how different environmental conditions affect levels, specialized prevent animals from getting sick. Our Extension...
Mosses harbor fungi whose interactions within their hosts remain largely unexplored. Trophic ranges of fungal endophytes from the moss Dicranum scoparium were hypothesized to encompass saprotrophism. This is an ideal host study trophic lability because its natural senescence gradient, and it can be grown axenically. was co-cultured with each eight endophytic isolated naturally occurring D. scoparium. Moss growth rates, gene expression levels (RNA sequencing) scoparium, compared between...
Bryophytes harbour microbiomes, including diverse communities of fungi. The molecular mechanisms by which perennial mosses interact with these fungal partners along their senescence gradients are unknown, yet this is an ideal system to study variation in gene expression associated trophic state transitions. We investigated differentially expressed genes and host Dicranum scoparium across its naturally occurring gradient using a metatranscriptomic approach. Higher activity nutrient-related...
Cultivars of bahiagrass (Paspalum notatum Flüggé) are widely used for pasture in the Southeastern USA. Soil microbial communities unexplored and they may be cultivar-dependent, as previously proven other grass species. Understanding influence cultivar selection on soil is crucial microbiome taxa have repeatedly been shown to directly linked plant performance.This study aimed determine whether different cultivars interactively bacterial fungal communities.Six ('Argentine', 'Pensacola', 'Sand...
Fungal members of Colletotrichum (Ascomycota) were found to be associated with Chordodes formosanus , one the three currently known horsehair worm (Nematomorpha) species in Taiwan. The fungi identified as fructicola which is mostly a plant pathogen, through use nuclear ribosomal internal transcribed spacer and partial large subunit (nrITS + nrLSU) glyceraldehyde-3-phosphate dehydrogenase (GAPDH) DNA sequences. To our knowledge, this report represents both first records for hairworms on...
Several ferns and lycophytes produce subterranean gametophytes, including the Ophioglossaceae, Psilotaceae, some members of Schizaeaceae, Gleicheniaceae, Lycopodiaceae. Despite surge in plant-microbiome research, which has been particularly boosted by high-throughput sequencing techniques, microbiomes these inconspicuous fern gametophytes have rarely examined. The are peculiar due to their achlorophyllous nature, makes them rely on fungi obtain nutrients. Furthermore, factors that shape...
Endophytic and mycorrhizal fungi are crucial in facilitating plant nutrition acquisition stress tolerance. In epiphytic habitats, plants face water stress, but their roots mostly nonmycorrhizal especially lacking arbuscular associations. Ophioderma pendulum is an fern with a partially mycoheterotrophic lifestyle, likely heavily reliant on symbiotic fungi. To characterize fungal associations the sporophyte of O. pendulum, we focused leaves seeking to reveal communities these organs.
Abstract Background Huperzine A (HupA) is a natural lycopodium alkaloid renowned for its efficacy in treating neurodegenerative diseases such as Alzheimer’s disease. It specifically occurs the Huperzioideae subfamily of Lycopodiaceae. Fungi associated with species are potential contributors to HupA biosynthesis, offering promising prospects production. However, limited knowledge fungal diversity lycophytes, coupled decreased production over time strains, has impeded discovery and...
The leaf mycobiome of forage grasses can have a major impact on their mycotoxin contents and subsequently affect livestock health. Despite the importance cattle industry in warm-climate regions, such as Florida, studies been primarily limited to temperate systems.
Within the forest community, competition and facilitation between adjacent-growing conspecific heterospecific plants are mediated by interactions involving common mycorrhizal networks. The ability of to alter their neighbor’s microbiome is well documented, but molecular biology plant-fungal during has not been previously examined. We used a soil-plant bioassay experiment study plant-microbial among rhizosphere communities associated with Pinus taeda (native host) Populus trichocarpa...
Abstract Profiling the taxonomic and functional composition of microbes using metagenomic (MG) metatranscriptomic (MT) sequencing is advancing our understanding microbial functions. However, sensitivity accuracy classification genome– or core protein-based approaches, especially eukaryotic organisms, limited by availability genomes resolution sequence databases. To address this, we propose MicroFisher, a novel approach that applies multiple hypervariable marker genes to profile fungal...
Abstract Phylosymbiosis, the congruence of microbiome composition with host phylogeny, is a valuable framework for investigating plant–microbe associations and their evolutionary ecology. This review assesses prevalence phylosymbiosis across plant kingdom, elucidates fundamental ecological processes contributing to its occurrence based on previous research explores commonly used methods identifying phylosymbiosis. We find that presence may be influenced by both phylogenetic distance...