ARGONAUTES are the central effector proteins of RNA silencing which bind target transcripts in a small RNA-guided manner. has 10 () genes, with specialized roles in RNA-directed DNA methylation, post-transcriptional gene silencing, and antiviral defense. To better understand specialization among genes at the level of transcriptional regulation we tested a library of 1497 transcription factors for binding to the promoters of ,, and using yeast 1-hybrid assays. A ranked list of candidate DNA-binding TFs revealed binding of the promoter by a number of proteins in two families: the miR156-regulated SPL family and the miR319-regulated TCP family, both of which have roles in developmental timing and leaf morphology. Possible functions for SPL and TCP binding are unclear: we showed that these binding sites are not required for the polar expression pattern of , nor for the function of in leaf shape. Normal transcription levels and function appear to depend instead on an adjacent 124-bp region. Progress in understanding the structure of this promoter may aid efforts to understand how the conserved AGO7-triggered pathway functions in timing and polarity.
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http://dx.doi.org/10.1002/pld3.102 | DOI Listing |
Methods Mol Biol
December 2024
The Centre for Crop and Disease Management, Curtin University, Bentley, WA, Australia.
The biochemical makeup of any organism provides insight into key factors regarding its biological functions. These factors can be explored using proteomics, which allows us to obtain a snapshot of the protein content and abundance in an organism, cell type or sub-cellular compartment. Here, we describe proteomic methodologies that can be used to dissect the biochemical mechanism of phytopathogenicity in oomycetes.
View Article and Find Full Text PDFMethods Mol Biol
December 2024
Department of Microbiology and Plant Pathology, University of California, Riverside, CA, USA.
Transcriptional regulation allows cells to execute developmental programs, maintain homeostasis, and respond to intra- and extracellular signals. Central to these processes are promoters, which in eukaryotes are sequences upstream of genes that bind transcription factors (TFs) and which recruit RNA polymerase to initiate mRNA synthesis. Valuable tools for studying promoters include reporter genes, which can be used to indicate when and where genes are activated.
View Article and Find Full Text PDFMembranes (Basel)
November 2024
Department of Biochemistry, University of Illinois Urbana, Champaign, IL 61801, USA.
Protein-lipid interactions demonstrate important regulatory roles in the function of membrane proteins. Nevertheless, due to the semi-liquid nature and heterogeneity of biological membranes, and dissecting the details of such interactions at high resolutions continues to pose a major challenge to experimental biophysical techniques. Computational techniques such as molecular dynamics (MD) offer an alternative approach with both temporally and spatially high resolutions.
View Article and Find Full Text PDFNucleic Acids Res
December 2024
Department of Radiation Oncology, University of Texas Health and Science Center, 7703 Floyd Curl Dr, San Antonio, TX 78229, USA.
Tousled-like kinases 1 and 2 (TLK1 and 2) are cell cycle-regulated serine/threonine kinases that are involved in multiple biological processes. Mutation of TLK1 and 2 confer neurodegenerative diseases. Recent studies demonstrate that TLK1 and 2 are involved in DNA repair.
View Article and Find Full Text PDFNucleic Acids Res
December 2024
Aix-Marseille University, INSERM, TAGC, UMR 1090 Marseille, France.
There is growing evidence that a wide range of human diseases and physiological traits are influenced by genetic variation of cis-regulatory elements. We and others have shown that a subset of promoter elements, termed Epromoters, also function as enhancer regulators of distal genes. This opens a paradigm in the study of regulatory variants, as single nucleotide polymorphisms (SNPs) within Epromoters might influence the expression of several (distal) genes at the same time, which could disentangle the identification of disease-associated genes.
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