A5052242949- Wheat and Barley Genetics and Pathology
- Plant Disease Resistance and Genetics
- Genomics and Chromatin Dynamics
- RNA modifications and cancer
- RNA Research and Splicing
- Plant Molecular Biology Research
- Genomics and Phylogenetic Studies
- Chromosomal and Genetic Variations
- RNA and protein synthesis mechanisms
- Plant nutrient uptake and metabolism
- Circular RNAs in diseases
- Soybean genetics and cultivation
- Heat shock proteins research
- Plant Virus Research Studies
- Molecular Biology Techniques and Applications
- Cancer-related molecular mechanisms research
- Mycotoxins in Agriculture and Food
Guangzhou University
2020-2023
South China Botanical Garden
2018-2020
Fujian Medical University
2020
Union Hospital
2020
Chinese Academy of Sciences
2020
The precise spatiotemporal gene expression is orchestrated by enhancers that lack general sequence features and thus are difficult to be computationally identified. By nascent RNA sequencing combined with epigenome profiling, we detect active transcription of from the complex bread wheat genome. We find genes associated transcriptional expressed at significantly higher levels, enhancer more robust in predicting activity compared chromatin features. demonstrate sub-genome-biased could drive...
Programmed constitutive heterochromatin silencing is essential for eukaryotic genome regulation, yet the initial step of this process ambiguous. A large proportion R-loops (RNA:DNA hybrids) had been unexpectedly identified within Arabidopsis pericentromeric with unknown functions. Through a genome-wide R-loop profiling screen, we find that DDM1 (decrease in DNA methylation 1) primary restrictor via its RNA:DNA helicase activity. Low levels resolved by cotranscriptionally can facilitate...
Abstract Plants have evolved efficient mechanisms for adapting to temperature fluctuations, known as heat stress response and memory. Although the transcriptional regulatory network of plant has been established, little is about genome‐wide changes occurring within first several minutes after shock. Here, we investigated nascent RNA mature messenger (mRNA) from leaf tissues exposed 5 min shock treatment using global run‐on sequencing methods. Only a small group genes were up‐ or...
Transposable elements (TEs) comprise ~85% of the common wheat genome, which are highly diverse among subgenomes, possibly contribute to polyploid plasticity, but causality is only assumed. Here, by integrating data from gene expression cap analysis and epigenome profiling via hidden Markov model in wheat, we detect a large proportion enhancer-like (ELEs) derived TEs producing nascent noncoding transcripts, namely ELE-RNAs, well indicative regulatory activity ELEs. Quantifying ELE-RNA...
Abstract High-throughput detection of nascent RNA is critical for studies transcription and much more challenging than that mRNA. Recently, several massively parallel sequencing methods were established in eukaryotic cells. Here, we systematically compared 3 classes on the same pure or crude nuclei preparations: GRO-seq sequence nuclear run-on RNAs, pNET-seq polymerase II-associated CB RNA-seq chromatin-bound (CB) RNAs Arabidopsis (Arabidopsis thaliana). To improve resolution 3′CB was to 3′...
Abstract Long non‐coding RNAs (lncRNAs), which are non‐protein‐coding transcripts, emerging as novel biomarkers for cancer diagnosis. Their dysregulation is increasingly recognized to contribute the development and progression of human cancers, including lung cancer. Linc00485 a newly discovered cancer‐related lncRNA; however, little known about its role in progression. In this study, we found that expression was significantly increased tissue associated with malignant phenotypes,...
Transcription is the first step of central dogma, in which genetic information stored DNA copied into RNA. In addition to mature RNA sequencing (RNA-seq), high-throughput nascent assays have been established and applied provide detailed transcriptional information. Here, we present profiling from trifoliate leaves shoot apices soybean. combination with (chromatin-bound RNA, CB RNA) RNA-seq, found that introns were largely spliced cotranscriptionally. Although alternative splicing (AS) was...
Exorbitant sequencing cost is one of the main obstacles limiting widespread application Global Run-On (GRO-seq) to detect transcriptional activity. Here, we describe a more efficient and affordable protocol for GRO-seq that incorporates an rRNA removal step after nuclear RNA isolation before nascent immunoprecipitation. We have successfully applied this profile enhancer transcription in allohexaploid bread wheat increased proportion valid data by 20 times. For complete details on use...