Selectively RNA interaction by a hnRNPA/B-like protein at presynaptic terminal of squid neuron

SummaryNumerous neurologic and psychiatric conditions are treated with pharmacological compounds, which lead to an increase of synaptic dopamine (DA) levels. One example is the DA precursor L-3,4-dihydroxyphenylalanine (L-DOPA), which is converted to DA in the presynaptic terminal. If the increase of DA concentrations in the synaptic cleft leads to competition with exogenous radioligands for presynaptic binding sites, this may have implications for DA transporter (DAT) imaging studies in patients under DAergic medication.This paper gives an overview on those findings, which, so far, have been obtained on DAT binding in human Parkinson’s disease after treatment with L-DOPA. Findings, moreover, are related to results obtained on rats, mice or non-human primates. Results indicate that DAT imaging may be reduced in the striata of healthy animals, in the unlesioned striata of animal models of unilateral Parkinson’s disease and in less severly impaired striata of Parkinsonian patients, if animal or human subjects are under acute or subchronic treatment with L-DOPA. If also striatal DAT binding is susceptible to alterations of synaptic DA levels, this may allow to quantify DA reuptake in analogy to DA release by assessing the competition between endogenous DA and the administered exogenous DAT radioligand.

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Novel Toxin-antitoxin System Xn-mazEF from Xenorhabdus nematophi-la: Identification, Characterization and Functional Exploration

Current Computer - Aided Drug Design ◽

10.2174/1573409916666200625135850 ◽

2020 ◽

Vol 16 ◽

Author(s):

Jogendra Singh Nim ◽

Mohit Yadav ◽

Lalit Kumar Gautam ◽

Chaitali Ghosh ◽

Shakti Sahi ◽

...

Keyword(s):

Interaction Analysis ◽

Functional Characterization ◽

Host Cells ◽

System Control ◽

Xenorhabdus Nematophila ◽

Functional Features ◽

Dynamics Simulations ◽

Species Specific ◽

Rna Interaction

Background: Xenorhabdus nematophila maintains species-specific mutual interaction with nematodes of Steinernema genus. Type II Toxin Antitoxin (TA) systems, the mazEF TA system controls stress and programmed cell death in bacteria. Objective: This study elucidates the functional characterization of Xn-mazEF, a mazEF homolog in X. nematophila by computational and in vitro approaches. Methods: 3 D- structural models for Xn-MazE toxin and Xn-MazF antitoxin were generated, validated and characterized for protein - RNA interaction analysis. Further biological and cellular functions of Xn-MazF toxin were also predicted. Molecular dynamics simulations of 50ns for Xn-MazF toxin complexed with nucleic acid units (DU, RU, RC, and RU) were performed. The MazF toxin and complete MazEF operon were endogenously expressed and monitored for the killing of Escherichia coli host cells under arabinose induced tightly regulated system. Results: Upon induction, E. coli expressing toxin showed rapid killing within four hours and attained up to 65% growth inhibition, while the expression of the entire operon did not show significant killing. The observation suggests that the Xn-mazEF TA system control transcriptional regulation in X. nematophila and helps to manage stress or cause toxicity leading to programmed death of cells. Conclusion: The study provides insights into structural and functional features of novel toxin, XnMazF and provides an initial inference on control of X. nematophila growth regulated by TA systems.

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PARP1–RNA interaction analysis: PARP1 regulates the expression of extracellular matrix‐related genes in HK‐2 renal proximal tubular epithelial cells

FEBS Letters ◽

10.1002/1873-3468.14065 ◽

2021 ◽

Author(s):

Jing Ke ◽

Feng Liu ◽

Yafang Tu ◽

Zhitao Cai ◽

Yu Luo ◽

...

Keyword(s):

Extracellular Matrix ◽

Epithelial Cells ◽

Interaction Analysis ◽

Tubular Epithelial Cells ◽

Proximal Tubular Epithelial Cells ◽

Proximal Tubular ◽

Renal Proximal Tubular ◽

Rna Interaction

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Failure of translational repression in the phage f2 op3 mutant is not due to an altered coat protein-RNA interaction.

Journal of Biological Chemistry ◽

10.1016/s0021-9258(17)43614-3 ◽

1984 ◽

Vol 259 (1) ◽

pp. 20-22

Author(s):

J Carey ◽

V Cameron ◽

M Krug ◽

P L de Haseth ◽

O C Uhlenbeck

Keyword(s):

Coat Protein ◽

Translational Repression ◽

Rna Interaction

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An antisense noncoding RNA enhances translation via localised structural rearrangements of its cognate mRNA

The Plant Cell ◽

10.1093/plcell/koab010 ◽

2021 ◽

Author(s):

Rodrigo S Reis ◽

Jules Deforges ◽

Romy R Schmidt ◽

Jos H M Schippers ◽

Yves Poirier

Keyword(s):

Antisense Rna ◽

Noncoding Rna ◽

Regulatory Region ◽

Structural Rearrangement ◽

Start Codon ◽

Structural Rearrangements ◽

Eukaryotic Genes ◽

Inhibitory Region ◽

Rna Interaction

Abstract A large portion of eukaryotic genes are associated with noncoding, natural antisense transcripts (NATs). Despite sharing extensive sequence complementarity with their sense mRNAs, mRNA-NAT pairs elusively often evade dsRNA-cleavage and siRNA-triggered silencing. More surprisingly, some NATs enhance translation of their sense mRNAs by yet unknown mechanism(s). Here we show that translation enhancement of the rice (Oryza sativa) PHOSPHATE1.2 (PHO1.2) mRNA is enabled by specific structural rearrangements guided by its noncoding antisense RNA (cis-NATpho1.2). Their interaction in vitro revealed no evidence of widespread intermolecular dsRNA formation, but rather specific local changes in nucleotide base-pairing, leading to higher flexibility of PHO1.2 mRNA at a key high GC regulatory region inhibiting translation, approximately 350 nucleotides downstream of the start codon. Sense-antisense RNA interaction increased formation of the 80S complex in PHO1.2, possibly by inducing structural rearrangement within this inhibitory region, thus making this mRNA more accessible to 60S. This work presents a framework for nucleotide-resolution studies of functional mRNA-antisense pairs. One-sentence summary: Interaction between PHO1.2 mRNA and its cis-natural antisense transcript enhances translation via a mechanism involving a local conformational shift and disruption of a key inhibitory region.

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Nonequilibrium thermodynamics of the RNA-RNA interaction underlying a genetic transposition program

Physical Review E ◽

10.1103/physreve.103.042410 ◽

2021 ◽

Vol 103 (4) ◽

Author(s):

Lucas Goiriz ◽

Guillermo Rodrigo

Keyword(s):

Nonequilibrium Thermodynamics ◽

Rna Interaction

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Integrated Analysis of Long Non-Coding RNA and mRNA Expression Profiles in Testes of Calves and Sexually Mature Wandong Bulls (Bos taurus)

Animals ◽

10.3390/ani11072006 ◽

2021 ◽

Vol 11 (7) ◽

pp. 2006

Author(s):

Hongyu Liu ◽

Ibrar Muhammad Khan ◽

Huiqun Yin ◽

Xinqi Zhou ◽

Muhammad Rizwan ◽

...

Keyword(s):

Target Genes ◽

Expression Profiles ◽

Age Groups ◽

Adherens Junction ◽

Integrated Analysis ◽

Sequencing Data ◽

Non Coding Rna ◽

Non Coding Rnas ◽

Rna Interaction ◽

Long Non Coding Rna

The mRNAs and long non-coding RNAs axes are playing a vital role in the regulating of post-transcriptional gene expression. Thereby, elucidating the expression pattern of mRNAs and long non-coding RNAs underlying testis development is crucial. In this study, mRNA and long non-coding RNAs expression profiles were investigated in 3-month-old calves and 3-year-old mature bulls’ testes by total RNA sequencing. Additionally, during the gene level analysis, 21,250 mRNAs and 20,533 long non-coding RNAs were identified. As a result, 7908 long non-coding RNAs (p-adjust < 0.05) and 5122 mRNAs (p-adjust < 0.05) were significantly differentially expressed between the distinct age groups. In addition, gene ontology and biological pathway analyses revealed that the predicted target genes are enriched in the lysine degradation, cell cycle, propanoate metabolism, adherens junction and cell adhesion molecules pathways. Correspondingly, the RT-qPCR validation results showed a strong consistency with the sequencing data. The source genes for the mRNAs (CCDC83, DMRTC2, HSPA2, IQCG, PACRG, SPO11, EHHADH, SPP1, NSD2 and ACTN4) and the long non-coding RNAs (COX7A2, COX6B2, TRIM37, PRM2, INHBA, ERBB4, SDHA, ATP6VOA2, FGF9 and TCF21) were found to be actively associated with bull sexual maturity and spermatogenesis. This study provided a comprehensive catalog of long non-coding RNAs in the bovine testes and also offered useful resources for understanding the differences in sexual development caused by the changes in the mRNA and long non-coding RNA interaction expressions between the immature and mature stages.

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What is transmitted in “synaptic transmission”?

AJP Advances in Physiology Education ◽

10.1152/advan.00006.2010 ◽

2010 ◽

Vol 34 (2) ◽

pp. 115-116 ◽

Cited By ~ 6

Author(s):

Erik Montagna ◽

Adriana M. S. de Azevedo ◽

Camilla Romano ◽

Ronald Ranvaud

Keyword(s):

Action Potential ◽

Synaptic Transmission ◽

Presynaptic Terminal ◽

Synaptic Integration ◽

High Grade ◽

Transmission Right ◽

The Mind

Even students that obtain a high grade in neurophysiology often carry away a serious misconception concerning the final result of the complex set of events that follows the arrival of an action potential at the presynaptic terminal. The misconception consists in considering that “at a synapse, information is passed on from one neuron to the next” is equivalent to (and often expressed explicitly as) “the action potential passes from one neuron to the next.” More than half of four groups of students who were asked to comment on an excerpt from a recent physiology textbook that openly stated the misconception had no clear objection to the text presented. We propose that the first culprit in generating this misconception is the term “synaptic transmission,” which promotes the notion of transferring something or passing something along (implicitly unchanged). To avoid establishing this misconception, the first simple suggestion is to use words like “synaptic integration” rather than “synaptic transmission” right from the start. More generally, it would be important to focus on the function of synaptic events rather than on rote listing of all the numerous steps that are known to occur, which are so complex as to saturate the mind of the student.

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