scholarly journals Sequencing and analysis of Arabidopsis thaliana NOR2 reveal its distinct organization and tissue-specific expression of rRNA ribosomal variants

2020 ◽  
Author(s):  
Jason Sims ◽  
Giovanni Sestini ◽  
Christiane Elgert ◽  
Arndt von Haeseler ◽  
Peter Schlögelhofer
Keyword(s):  
Rrna Gene ◽  
Sequence Information ◽  
Specific Expression ◽  
Rdna Genes ◽  
Tissue Specific ◽  
Short Read Sequencing ◽  
Sequencing Technologies ◽  
Nucleolus Organizing Region ◽  
Specific Manner ◽  
Genes Encoding

AbstractDespite vast differences between organisms, some characteristics of their genomes are conserved, such as the nucleolus organizing region (NOR). The NOR is constituted of multiple, highly repetitive rDNA genes, encoding the catalytic ribosomal core RNAs which are transcribed from 45S rDNA units. Their precise sequence information and organization remained uncharacterized.We used a combination of long- and short-read sequencing technologies to assemble contigs of the Arabidopsis NOR2 rDNA domain providing a first map. We identified several expressed rRNA gene variants which are integrated into translating ribosomes in a tissue-specific manner. These findings support the concept of tissue specific ribosome subpopulations that differ in their rRNA composition and provide the higher order organization of NOR2.

scholarly journals Sequencing of the Arabidopsis NOR2 reveals its distinct organization and tissue-specific rRNA ribosomal variants

2021 ◽  
Vol 12 (1) ◽  
Author(s):  
Jason Sims ◽  
Giovanni Sestini ◽  
Christiane Elgert ◽  
Arndt von Haeseler ◽  
Peter Schlögelhofer
Keyword(s):  
Rrna Gene ◽  
Sequence Information ◽  
45S Rdna ◽  
Rdna Genes ◽  
Tissue Specific ◽  
Short Read Sequencing ◽  
Sequencing Technologies ◽  
Nucleolus Organizing Region ◽  
Specific Manner ◽  
Genes Encoding

AbstractDespite vast differences between organisms, some characteristics of their genomes are conserved, such as the nucleolus organizing region (NOR). The NOR is constituted of multiple, highly repetitive rDNA genes, encoding the catalytic ribosomal core RNAs which are transcribed from 45S rDNA units. Their precise sequence information and organization remain uncharacterized. Here, using a combination of long- and short-read sequencing technologies we assemble contigs of the Arabidopsis NOR2 rDNA domain. We identify several expressed rRNA gene variants which are integrated into translating ribosomes in a tissue-specific manner. These findings support the concept of tissue specific ribosome subpopulations that differ in their rRNA composition and provide insights into the higher order organization of NOR2.

scholarly journals Tissue-specific, developmental, hormonal, and dietary regulation of rat phosphoenolpyruvate carboxykinase-human growth hormone fusion genes in transgenic mice.

1992 ◽  
Vol 12 (3) ◽  
pp. 1007-1020 ◽  
Author(s):  
M K Short ◽  
D E Clouthier ◽  
I M Schaefer ◽  
R E Hammer ◽  
M A Magnuson ◽  
...  
Keyword(s):  
Growth Hormone ◽  
Transgenic Mice ◽  
Human Growth Hormone ◽  
Phosphoenolpyruvate Carboxykinase ◽  
Human Growth ◽  
Fusion Genes ◽  
Specific Expression ◽  
Tissue Specific ◽  
Cis Acting ◽  
Specific Manner

The cytosolic phosphoenolpyruvate carboxykinase (PEPCK) gene is expressed in multiple tissues and is regulated in a complex tissue-specific manner. To map the cis-acting DNA elements that direct this tissue-specific expression, we made transgenic mice containing truncated PEPCK-human growth hormone (hGH) fusion genes. The transgenes contained PEPCK promoter fragments with 5' endpoints at -2088, -888, -600, -402, and -207 bp, while the 3' endpoint was at +69 bp. Immunohistochemical analysis showed that the -2088 transgene was expressed in the correct cell types (hepatocytes, proximal tubular epithelium of the kidney, villar epithelium of the small intestine, epithelium of the colon, smooth muscle of the vagina and lungs, ductal epithelium of the sublingual gland, and white and brown adipocytes). Solution hybridization of hGH mRNA expressed from the transgenes indicated that white and brown fat-specific elements are located distally (-2088 to -888 bp) and that liver-, gut-, and kidney-specific elements are located proximally (-600 to +69 bp). However, elements outside of the region tested are necessary for the correct developmental pattern and level of PEPCK expression in kidney. Both the -2088 and -402 transgenes responded in a tissue-specific manner to dietary stimuli, and the -2088 transgene responded to glucocorticoid stimuli. Thus, different tissues utilize distinct cell-specific cis-acting elements to direct and regulate the PEPCK gene.

Ouabain-sensitive H,K-ATPase: tissue-specific expression of the mammalian genes encoding the catalytic α subunit1

FEBS Letters ◽  
1998 ◽  
Vol 440 (3) ◽  
pp. 320-324 ◽  
Author(s):  
Nikolay B Pestov ◽  
Ludmila G Romanova ◽  
Tatyana V Korneenko ◽  
Maxim V Egorov ◽  
Maria B Kostina ◽  
...  
Keyword(s):  
Specific Expression ◽  
Tissue Specific ◽  
Tissue Specific Expression ◽  
Genes Encoding ◽  
Mammalian Genes

scholarly journals Tissue-Specific Expression and Androgen Regulation of Different Genes Encoding Rat Prostatic 22-Kilodalton Glycoproteins Homologous to Human and Rat Cystatin

1990 ◽  
Vol 4 (4) ◽  
pp. 657-667 ◽  
Author(s):  
Joris Winderickx ◽  
Katrien Hemschoote ◽  
Norbert De Clercq ◽  
Patrick Van Dijck ◽  
Ben Peeters ◽  
...  
Keyword(s):  
Specific Expression ◽  
Tissue Specific ◽  
Tissue Specific Expression ◽  
Genes Encoding ◽  
Androgen Regulation

scholarly journals A comprehensive manually-curated Compendium of Bovine Transcription Factors

2018 ◽  
Author(s):  
Marcela M de Souza ◽  
Juan M Vaquerizas ◽  
Adhemar Zerlotini ◽  
Ludwig Geistlinger ◽  
Benjamín Hernández-Rodríguez ◽  
...  
Keyword(s):  
Gene Expression ◽  
Transcription Factors ◽  
Regulation Of Gene Expression ◽  
Regulatory Proteins ◽  
Regulatory Mechanisms ◽  
Domain Family ◽  
Specific Expression ◽  
Tissue Specific ◽  
Control Gene Expression ◽  
Specific Manner

ABSTRACTTranscription factors (TFs) are pivotal regulatory proteins that control gene expression in a context-dependent and tissue-specific manner. In contrast to human, where comprehensive curated TF collections exist, bovine TFs are only rudimentary recorded and characterized. In this article, we present a manually-curated compendium of 865 sequence-specific DNA-binding bovines TFs, which we analyzed for domain family distribution, evolutionary conservation, and tissue-specific expression. In addition, we provide a list of putative transcription cofactors derived from known interactions with the identified TFs. Since there is a general lack of knowledge concerning the regulation of gene expression in cattle, the curated list of TF should provide a basis for an improved comprehension of regulatory mechanisms that are specific to the species.

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