A5043306110- RNA and protein synthesis mechanisms
- RNA modifications and cancer
- RNA Research and Splicing
- Protist diversity and phylogeny
- Genomics and Chromatin Dynamics
- Microbial Community Ecology and Physiology
- Genomics and Phylogenetic Studies
- Photosynthetic Processes and Mechanisms
- Cancer, Hypoxia, and Metabolism
- Plant Disease Resistance and Genetics
- Epigenetics and DNA Methylation
- Circadian rhythm and melatonin
- Cancer Research and Treatments
- Light effects on plants
- Plant and Fungal Interactions Research
- Fungal and yeast genetics research
- Biochemical and Molecular Research
- Marine and coastal ecosystems
- Chromosomal and Genetic Variations
- Algal biology and biofuel production
- Bacteriophages and microbial interactions
- Protein Degradation and Inhibitors
- Peptidase Inhibition and Analysis
- Legume Nitrogen Fixing Symbiosis
- Plant Molecular Biology Research
Yunnan University
2018-2025
Zhejiang University
2021
The University of Texas Southwestern Medical Center
2011-2019
University of British Columbia
2007-2013
Shanghai Institutes for Biological Sciences
2005
Chinese Academy of Sciences
2005
Center for Excellence in Molecular Cell Science
2005
Codon usage biases are found in all eukaryotic and prokaryotic genomes, preferred codons more frequently used highly expressed genes. The effects of codon on gene expression were previously thought to be mainly mediated by its impacts translation. Here, we show that strongly correlates with both protein mRNA levels genome-wide the filamentous fungus Neurospora Gene optimization also results strong up-regulation RNA levels, suggesting is an important determinant expression. Surprisingly,...
Codon usage biases are found in all genomes and influence protein expression levels. The codon effect on was thought to be mainly due its impact translation. Here, we show that transcription termination is an important driving force for bias eukaryotes. Using Neurospora crassa as a model organism, demonstrated introduction of rare codons results premature (PTT) within open reading frames abolishment full-length mRNA. PTT wide-spread phenomenon Neurospora, there strong negative correlation...
Codon usage bias is a universal feature of eukaryotic and prokaryotic genomes plays an important role in regulating gene expression levels. A major codon thought to regulate protein levels by affecting mRNA translation efficiency, but the underlying mechanism unclear. By analyzing ribosome profiling results, here we showed that regulates elongation rate rare codons are decoded more slowly than common all families Neurospora. Rare resulted stalling manners both dependent independent sequence...
Significance Codon usage bias, the preference for certain synonymous codons, is a feature of all genomes and plays an important role in determining gene expression levels. Surprisingly, addition to its mRNA translation, codon was recently shown regulate at transcriptional level. In this study, our results suggest that influences transcription genome-wide independently effect on translation. By carrying out large-scale genetic screen, we identified 18 factors participating multiple regulatory...
Abstract Ribosomal frameshifting refers to the process that ribosomes slip into +1 or −1 reading frame, thus produce chimeric trans-frame proteins. In viruses and bacteria, programmed ribosomal can essential proteins for viral replication regulation of other biological processes. humans, however, functional protein derived from is scarcely documented. Combining multiple assays, we show short codon repeats could act as cis-acting elements stimulate in abbreviated CRFS hereafter. Using...
The interplay between circadian clocks, the cell cycle, and DNA repair has been extensively documented, yet epigenetic control of clocks by damage responses remains relatively unexplored. Here, we showed that checkpoint kinases CHK1/2 regulate chromatin structure during in Neurospora crassa to maintain robust rhythms. Under stress, deletion chk1/2 disrupted rhythmic transcription clock gene frq suppressing binding activator White Collar complex (WCC) at promoter, as remained condensed....
Circadian clocks are known to modulate host immune responses pathogen infections, yet their role in influencing pathogenesis remains unclear. Here, we investigated the of circadian regulating fungal Fusarium oxysporum , which has multiple genes homologous Neurospora crassa frq due gene duplication events, with Fofrq1 being primary clock gene. The F. plants is controlled by its clock, infections causing severe disease symptoms at dawn. Notably, disruption dramatically reduces pathogenicity....
Codon usage bias is a universal feature of all genomes and plays an important role in regulating protein expression levels. Modification adenosine to inosine at the tRNA anticodon wobble position (I34) by deaminases (ADATs) observed eukaryotes has been proposed explain correlation between codon pool. However, how pool affected I34 modification influence usage-dependent gene unclear. Using Neurospora crassa as model system, combining molecular, biochemical bioinformatics analyses, we show...
Armed oncolytic adenoviruses represent an appealing tumor treatment approach, as they can attack tumors at multiple levels. In this study, considering that angiogenesis plays a central role in growth, we inserted antiangiogenic gene, sflt-1(1–3) (the first three extracellular domains of FLT1, the hVEGF receptor-1), into E1B-55-kDa-deleted adenovirus (ZD55) to construct ZD55-sflt-1. Although soluble (s) Flt-1 did not affect cell ZD55-sflt-1 could specifically induce cytopathic effect cells,...
Cytosine methylation of DNA is an important epigenetic gene silencing mechanism in plants, fungi, and animals. In the filamentous fungus Neurospora crassa, nearly all known methylations occur transposon relics repetitive sequences, does not depend on canonical RNAi pathway. disiRNAs are Dicer-independent small non-coding RNAs that arise from gene-rich part genome. Here we describe a new type associated with disiRNA loci. Unlike Neurospora, loci (DLDM) highly dynamic regulated by on/off...
Abstract Crucial mechanisms are required to restrict self-propagating heterochromatin spreading within defined boundaries and prevent euchromatic gene silencing. In the filamentous fungus Neurospora crassa, JmjC domain protein DNA METHYLATION MODULATOR-1 (DMM-1) prevents aberrant of heterochromatin, but molecular details remain unknown. Here, we revealed that DMM-1 is highly enriched in a well-defined 5-kb upstream cat-3 gene, hereby called 5H-cat-3 domain, constrain spreading....
Abstract Heterochromatin is a key feature of eukaryotic genomes and crucial for maintaining genomic stability. In fission yeast, heterochromatin nucleation mainly mediated by DNA-binding proteins or the RNA interference (RNAi) pathway. filamentous fungus Neurospora crassa, however, mechanism that causes initiation at relics repeat-induced point mutation unknown independent classical RNAi Here, we show casein kinase II (CKII) its activity are required formation well-defined 5-kb 5H-cat-3...
The chloroplast genome of a dinoflagellate consists group small circular DNA molecules (minicircles), most which carry single gene. With RT-PCR, primer extension, and Northern analyses, we show that the entire minicircle is transcribed some minicircles can produce RNAs larger than themselves. Using an RNA ligase-mediated rapid amplification cDNA ends method, were able to detect large processed precursors are generated by endonucleolytic cleavage even longer molecule. This produces mature...
In eukaryotes, antisense transcription can regulate sense by induction of epigenetic modifications. We showed previously that triggers Dicer-independent siRNA (disiRNA) production and disiRNA locus DNA methylation (DLDM) in Neurospora crassa Here we show the conserved exonuclease ERI-1 (enhanced RNAi-1) is a critical component this process. Antisense binding to target RNAs are necessary sufficient trigger DLDM. Convergent causes stalling RNA polymerase II during transcription, which permits...
Dinoflagellates are a large group of algae that contribute significantly to marine productivity and essential photosynthetic symbionts corals. Although these have fully-functioning mitochondria chloroplasts, both their organelle genomes been highly reduced the genes fragmented rearranged, with many aberrant transcripts. However, nothing is known about RNA polymerases. We cloned sequenced gene for nuclear-encoded mitochondrial polymerase (RpoTm) dinoflagellate Heterocapsa triquetra showed...