A5086063301- Plant Molecular Biology Research
- Plant Reproductive Biology
- Gene expression and cancer classification
- Chromosomal and Genetic Variations
- Bioinformatics and Genomic Networks
- Plant tissue culture and regeneration
- Plant Stress Responses and Tolerance
- Genomics and Chromatin Dynamics
- Photosynthetic Processes and Mechanisms
- Plant and Fungal Interactions Research
- Plant nutrient uptake and metabolism
- Plant Virus Research Studies
- RNA Research and Splicing
- Research in Cotton Cultivation
- Single-cell and spatial transcriptomics
- Plant Gene Expression Analysis
- Light effects on plants
- Plant Genetic and Mutation Studies
- Plant-Microbe Interactions and Immunity
- RNA modifications and cancer
- Polysaccharides and Plant Cell Walls
Center for Excellence in Molecular Plant Sciences
2019-2024
University of Chinese Academy of Sciences
2019-2024
Chinese Academy of Sciences
2019-2024
Nanjing Agricultural University
2018
Highlights•The dynamic chromatin state landscape during shoot regeneration is revealed•Collapse of pluripotency in the absence cytokinin signaling•Generation a catalog regulatory sequences regeneration•A cohort transcription factors involved outlinedSummaryShoot mediated by sequential action two phytohormones, auxin and cytokinin. However, landscapes underlying this response have not yet been studied. In study, we jointly profiled accessibility, histone modifications, transcriptomes to...
Age and wounding are two major determinants for regeneration. In plants, the root regeneration is triggered by wound-induced auxin biosynthesis. As plants age, regenerative capacity gradually decreases. How leads to burst how age wound signals collaboratively regulate poorly understood. Here, we show that increased levels of three closely-related miR156-targeted Arabidopsis (Arabidopsis thaliana) SQUAMOSA PROMOTER BINDING PROTEIN-LIKE (SPL) transcription factors, SPL2, SPL10, SPL11, suppress...
Abstract Plants undergo extended morphogenesis. The shoot apical meristem (SAM) allows for reiterative development and the formation of new structures throughout life plant. Intriguingly, SAM produces morphologically different leaves in an age-dependent manner, a phenomenon known as heteroblasty. In Arabidopsis thaliana, small orbicular juvenile phase, but gives rise to large elliptical adult phase. Previous studies have established that developmental decline microRNA156 (miR156) is...
Interspecific hybridization and whole genome duplication are driving forces of genomic organism diversification. But the effect interspecific on non-coding portion in particular remains largely unknown. In this study, we examine profile long RNAs (lncRNAs), comparing them with that coding genes allotetraploid cotton (Gossypium hirsutum), its putative diploid ancestors (G. arboreum; G. raimondii), an F1 hybrid arboreum × raimondii, AD).We find most lncRNAs (80%) were allelic expressed genome....
Abstract Cryptochromes (CRYs) are evolutionarily conserved photolyase-like photoreceptors found in almost all species, including mammals. CRYs regulate transcription by modulating the activity of several factors, but whether and how they affect pre-mRNA processing unknown. Photoperiod temperature closely associated seasonal cues that influence reproductive timing plants. mediate photoperiod-responsive floral initiation, it is largely unknown also involved thermosensory flowering. We...
The development of perennial crops holds great promise for sustainable agriculture and food security. However, the evolution transition between perenniality annuality is poorly understood. Here, using two Brassicaceae species, Crucihimalaya himalaica Erysimum nevadense, as polycarpic models, we reveal that from to biennial annual flowering behavior a continuum determined by dosage three closely related MADS-box genes. Diversification expression patterns, functional strengths, combinations...
Significance Why the developmental transitions of multicellular organisms are unidirectional and how rate these is determined biological mysteries. Earlier reports have shown that both animals plants utilize microRNA (miRNA) as a timer in regulating their transitions. However, age temporally regulates abundance miRNAs poorly understood. In plants, progressive decline miR156 triggers appearance adult traits. Here, we show cell division apical meristem trigger for decline. The transcriptional...
Plant somatic embryogenesis refers to a phenomenon where embryos develop from cells in the absence of fertilization. It provides powerful system produce genetically modified crops as well obtain artificial seeds. Previous studies have revealed that embryo formation can be achieved by treatment tissues with auxin, ectopic overexpression specific transcription factor, or disruption certain chromatin-modifying proteins. However, how auxin induces cell totipotent state and factors trigger are...
Abstract Background Transcription factors (TFs) play central roles in regulating gene expression. With the rapid growth use of high-throughput sequencing methods, there is a need to develop comprehensive data processing and analyzing framework for inferring influential TFs based on ChIP-seq/ATAC-seq datasets. Results Here, we introduce FindIT2 (Find Influential Targets), an R/Bioconductor package annotating multi-omics data. supports complete peaks, identifying TF targets by combination...
Open or accessible regions of the genome are primary positions binding sites for transcription factors and chromatin regulators. Transposase-accessible sequencing (ATAC-seq) can probe accessibility in intact nucleus. Here, we describe a protocol to generate ATAC-seq libraries from fresh Arabidopsis thaliana tissues establish an easy-to-use bioinformatic analysis pipeline. Our method could be applied other plants allows reliable detection changes throughout plant growth development. For...
Genome-editing technologies have advanced in recent years but designing future crops is still limited by current methods of improving shoot regenerative capacity. Shoot regeneration mediated the sequential action two phytohormones, auxin and cytokinin. However, chromatin regulatory landscapes underlying this dynamic response not yet been studied. In study, we jointly profiled accessibility, histone modifications, transcriptomes to demonstrate that a high-auxin environment primes increasing...
Multicellular organisms undergo several developmental transitions during their life cycles. In contrast to animals, the plant germline and zygote are derived from adult somatic cells. As such, juvenility of a must be reset in each generation. Previous studies have demonstrated that decline levels miR156/7 with age drives maturation. Here, we show transgenerational is mediated by de novo activation MIR156/7 Arabidopsis. Blocking this process leads shortened juvenile phase premature flowering...
What determines the rate at which a multicellular organism matures is fundamental question in biology. In plants, decline of miR156 with age serves as an intrinsic, evolutionarily conserved timer for juvenile-to-adult phase transition. However, way regulates abundance poorly understood. Here, we show that correlated developmental rather than chronological age. Mechanistically, found cell division apical meristem trigger decline. The transcriptional activity MIR156 genes gradually attenuated...