scholarly journals A double negative post-transcriptional regulatory circuit underlies the virgin behavioral state

2020 ◽  
Author(s):  
Daniel Garaulet ◽  
Albertomaria Moro ◽  
Eric C. Lai
Keyword(s):  
Ventral Nerve Cord ◽  
Genomic Analysis ◽  
Social Programs ◽  
Double Negative ◽  
Behavioral State ◽  
Regulatory Circuit ◽  
Transcriptional Regulatory ◽  
Internal States ◽  
Default State ◽  
Transcriptional Pathway

The survival and reproductive success of animals depends on the ability to harmonize their external behaviors with their internal states. For example, females conduct numerous social programs that are distinctive to virgins, compared to post-mated and/or pregnant individuals. In Drosophila, the fact that this post-mating switch is initiated by seminal factors implies that the default state is virgin. However, we recently showed that loss of miR-iab-4/8-mediated repression of the transcription factor Homothorax (Hth) within the abdominal ventral nerve cord (VNC) causes virgin females to execute mated behaviors. To elucidate new components of this post-transcriptional regulatory circuit, we used genomic analysis of mir-iab-4/8 deletion and hth-miRNA binding site mutants (hth[BSmut]) to elucidate doublesex (dsx) as a critical downstream factor. While Dsx has mostly been studied during sex-specific differentiation, its activities in neurons are little known. We find that accumulation of Dsx in the CNS is highly complementary to Hth, and downregulated in miRNA/hth[BSmut] mutants. Moreover, virgin behavior is highly dose-sensitive to developmental dsx function. Strikingly, depletion of Dsx in SAG-1 cells, a highly restricted set of abdominal neurons, abrogates female virgin conducts in favor of mated behavioral programs. Thus, a double negative post-transcriptional pathway in the VNC (miR-iab-4/8 -| Hth -| Dsx) specifies the virgin behavioral state.

scholarly journals A double-negative gene regulatory circuit underlies the virgin behavioral state

Cell Reports ◽  
2021 ◽  
Vol 36 (1) ◽  
pp. 109335
Author(s):  
Daniel L. Garaulet ◽  
Albertomaria Moro ◽  
Eric C. Lai
Keyword(s):  
Double Negative ◽  
Behavioral State ◽  
Regulatory Circuit ◽  
Gene Regulatory ◽  
Negative Gene

scholarly journals A transcriptional regulatory circuit for the photosynthetic acclimation of microalgae to carbon dioxide limitation

2020 ◽  
Author(s):  
Olga Blifernez-Klassen ◽  
Hanna Berger ◽  
Birgit Gerlinde Katharina Mittmann ◽  
Viktor Klassen ◽  
Louise Schelletter ◽  
...  
Keyword(s):  
Carbon Dioxide ◽  
Protein Interactions ◽  
Prolonged Exposure ◽  
Light Harvesting ◽  
Low Carbon ◽  
Protein Protein Interactions ◽  
Regulatory Circuit ◽  
Expression Of Genes ◽  
Transcriptional Regulatory ◽  
Squamosa Promoter Binding Protein

ABSTRACTIn green microalgae, prolonged exposure to inorganic carbon depletion requires long-term acclimation responses, based on a modulated expression of genes and adjusting photosynthetic activity to the prevailing supply of carbon dioxide. Here, we depict a microalgal regulatory cycle, adjusting the light-harvesting capacity at PSII to the prevailing supply of carbon dioxide in Chlamydomonas reinhardtii. It engages a newly identified low carbon dioxide response factor (LCRF), which belongs to the Squamosa promoter binding protein (SBP) family of transcription factors, and the previously characterized cytosolic translation repressor NAB1. LCRF combines a DNA-binding SBP domain with a conserved domain for protein-protein interactions and transcription of the LCRF gene is rapidly induced by carbon dioxide depletion. LCRF activates transcription of the NAB1 gene by specifically binding to tetranucleotide motifs present in its promoter. Accumulation of the NAB1 protein enhances translational repression of its prime target mRNA, encoding the PSII-associated major light-harvesting protein LHCBM6. The resulting reduction of the PSII antenna size helps maintaining a low excitation during the prevailing carbon dioxide limitation. Analyses of low carbon dioxide acclimation in nuclear insertion mutants devoid of a functional LCRF gene confirm the essentiality of this novel transcription factor for the regulatory circuit.

scholarly journals Oncogenes Activate an Autonomous Transcriptional Regulatory Circuit That Drives Glioblastoma

Cell Reports ◽  
2017 ◽  
Vol 18 (4) ◽  
pp. 961-976 ◽  
Author(s):  
Dinesh K. Singh ◽  
Rahul K. Kollipara ◽  
Vamsidara Vemireddy ◽  
Xiao-Li Yang ◽  
Yuxiao Sun ◽  
...  
Keyword(s):  
Regulatory Circuit ◽  
Transcriptional Regulatory

A four‐tiered transcriptional regulatory circuit controls flagellar biogenesis in Pseudomonas aeruginosa

2003 ◽  
Vol 50 (3) ◽  
pp. 809-824 ◽  
Author(s):  
Nandini Dasgupta ◽  
Matthew C. Wolfgang ◽  
Andrew L. Goodman ◽  
Shiwani K. Arora ◽  
Jeevan Jyot ◽  
...  
Keyword(s):  
Pseudomonas Aeruginosa ◽  
Regulatory Circuit ◽  
Transcriptional Regulatory ◽  
Flagellar Biogenesis

scholarly journals Pan-genomic analysis of transcriptional modules across Salmonella Typhimurium reveals the regulatory landscape of different strains

2022 ◽  
Author(s):  
Yuan Yuan ◽  
Yara Seif ◽  
Kevin Rychel ◽  
Reo Yoo ◽  
Siddharth M Chauhan ◽  
...  
Keyword(s):  
Transcriptional Regulatory Network ◽  
Genomic Analysis ◽  
Rna Seq ◽  
High Quality ◽  
Transcriptional Regulatory ◽  
Serovar Typhimurium ◽  
Gene Modules ◽  
Different Strains ◽  
Genetic Signatures ◽  
Regulatory Landscape

Salmonella enterica Typhimurium is a serious pathogen that is involved in human nontyphoidal infections. Tackling Typhimurium infections is difficult due to the species' dynamic adaptation to its environment, which is dictated by a complex transcriptional regulatory network (TRN). While traditional biomolecular methods provide characterizations of specific regulators, it is laborious to construct the global TRN structure from this bottom-up approach. Here, we used a machine learning technique to understand the transcriptional signatures of S. enterica Typhimurium from the top down, as a whole and in individual strains. Furthermore, we conducted cross-strain comparison of 6 strains in serovar Typhimurium to investigate similarities and differences in their TRNs with pan-genomic analysis. By decomposing all the publicly available RNA-Seq data of Typhimurium with independent component analysis (ICA), we obtained over 400 independently modulated sets of genes, called iModulons. Through analysis of these iModulons, we 1) discover three transport iModulons linked to antibiotic resistance, 2) describe concerted responses to cationic antimicrobial peptides (CAMPs), 3) uncover evidence towards new regulons, and 4) identify two iModulons linked to bile responses in strain ST4/74. We extend this analysis across the pan-genome to show that strain-specific iModulons 5) reveal different genetic signatures in pathogenicity islands that explain phenotypes and 6) capture the activity of different phages in the studied strains. Using all high-quality publicly-available RNA-Seq data to date, we present a comprehensive, data-driven Typhimurium TRN. It is conceivable that with more high-quality datasets from more strains, the approach used in this study will continue to guide our investigation in understanding the pan-transcriptome of Typhimurium. Interactive dashboards for all gene modules in this project are available at https://imodulondb.org/ to enable browsing for interested researchers.

scholarly journals A Long Noncoding RNA Transcriptional Regulatory Circuit Drives Thermogenic Adipocyte Differentiation

2014 ◽  
Vol 55 (3) ◽  
pp. 372-382 ◽  
Author(s):  
Xu-Yun Zhao ◽  
Siming Li ◽  
Guo-Xiao Wang ◽  
Qi Yu ◽  
Jiandie D. Lin
Keyword(s):  
Long Noncoding Rna ◽  
Noncoding Rna ◽  
Adipocyte Differentiation ◽  
Regulatory Circuit ◽  
Transcriptional Regulatory

scholarly journals Competing Endogenous RNA: The Key to Posttranscriptional Regulation

2014 ◽  
Vol 2014 ◽  
pp. 1-6 ◽  
Author(s):  
Rituparno Sen ◽  
Suman Ghosal ◽  
Shaoli Das ◽  
Subrata Balti ◽  
Jayprokas Chakrabarti
Keyword(s):  
Posttranscriptional Regulation ◽  
Circular Rnas ◽  
Biological Processes ◽  
Messenger Rnas ◽  
Competing Endogenous Rna ◽  
Protein Coding ◽  
Regulatory Circuit ◽  
Transcriptional Regulatory ◽  
Mirna Sponges ◽  
The Impact

Competing endogenous RNA, ceRNA, vie with messenger RNAs (mRNAs) for microRNAs (miRNAs) with shared miRNAs responses elements (MREs) and act as modulator of miRNA by influencing the available level of miRNA. It has recently been discovered that, apart from protein-coding ceRNAs, pseudogenes, long noncoding RNAs (lncRNAs), and circular RNAs act as miRNA “sponges” by sharing common MRE, inhibiting normal miRNA targeting activity on mRNA. These MRE sharing elements form the posttranscriptional ceRNA network to regulate mRNA expression. ceRNAs are widely implicated in many biological processes. Recent studies have identified ceRNAs associated with a number of diseases including cancer. This brief review focuses on the molecular mechanism of ceRNA as part of the complex post-transcriptional regulatory circuit in cell and the impact of ceRNAs in development and disease.

scholarly journals Regulation of cellular iron metabolism

2011 ◽  
Vol 434 (3) ◽  
pp. 365-381 ◽  
Author(s):  
Jian Wang ◽  
Kostas Pantopoulos
Keyword(s):  
Iron Metabolism ◽  
Mammalian Cells ◽  
Regulatory Protein ◽  
Cell Types ◽  
Excess Iron ◽  
Cellular Iron ◽  
System A ◽  
Regulatory Circuit ◽  
Transcriptional Regulatory ◽  
Responsive Element

Iron is an essential but potentially hazardous biometal. Mammalian cells require sufficient amounts of iron to satisfy metabolic needs or to accomplish specialized functions. Iron is delivered to tissues by circulating transferrin, a transporter that captures iron released into the plasma mainly from intestinal enterocytes or reticuloendothelial macrophages. The binding of iron-laden transferrin to the cell-surface transferrin receptor 1 results in endocytosis and uptake of the metal cargo. Internalized iron is transported to mitochondria for the synthesis of haem or iron–sulfur clusters, which are integral parts of several metalloproteins, and excess iron is stored and detoxified in cytosolic ferritin. Iron metabolism is controlled at different levels and by diverse mechanisms. The present review summarizes basic concepts of iron transport, use and storage and focuses on the IRE (iron-responsive element)/IRP (iron-regulatory protein) system, a well known post-transcriptional regulatory circuit that not only maintains iron homoeostasis in various cell types, but also contributes to systemic iron balance.

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