scholarly journals MiR193a Modulation and Podocyte Phenotype

Cells ◽  
2020 ◽  
Vol 9 (4) ◽  
pp. 1004
Author(s):  
Alok Jha ◽  
Shourav Saha ◽  
Kamesh Ayasolla ◽  
Himanshu Vashistha ◽  
Ashwani Malhotra ◽  
...  

Apolipoprotein L1 (APOL1)-miR193a axis has been reported to play a role in the maintenance of podocyte homeostasis. In the present study, we analyzed transcription factors relevant to miR193a in human podocytes and their effects on podocytes’ molecular phenotype. The motif scan of the miR193a gene provided information about transcription factors, including YY1, WT1, Sox2, and VDR-RXR heterodimer, which could potentially bind to the miR193a promoter region to regulate miR193a expression. All structure models of these transcription factors and the tertiary structures of the miR193a promoter region were generated and refined using computational tools. The DNA-protein complexes of the miR193a promoter region and transcription factors were created using a docking approach. To determine the modulatory role of miR193a on APOL1 mRNA, the structural components of APOL1 3’ UTR and miR193a-5p were studied. Molecular Dynamic (MD) simulations validated interactions between miR193a and YY1/WT1/Sox2/VDR/APOL1 3′ UTR region. Undifferentiated podocytes (UPDs) displayed enhanced miR193a, YY1, and Sox2 but attenuated WT1, VDR, and APOL1 expressions, whereas differentiated podocytes (DPDs) exhibited attenuated miR193a, YY1, and Sox2 but increased WT1, VDR, APOL1 expressions. Inhibition of miR193a in UPDs enhanced the expression of APOL1 as well as of podocyte molecular markers; on the other hand, DPD-transfected with miR193a plasmid showed downing of APOL1 as well as podocyte molecular markers suggesting a causal relationship between miR193a and podocyte molecular markers. Silencing of YY1 and Sox2 in UPDs decreased the expression of miR193a but increased the expression of VDR, and CD2AP (a marker of DPDs); in contrast, silencing of WT1 and VDR in DPDs enhanced the expression of miR193a, YY1, and Sox2. Since miR193a-downing by Vitamin D receptor (VDR) agonist not only enhanced the mRNA expression of APOL1 but also of podocyte differentiating markers, suggest that down-regulation of miR193a could be used to enhance the expression of podocyte differentiating markers as a therapeutic strategy.

2017 ◽  
Vol 45 (3) ◽  
pp. 599-611 ◽  
Author(s):  
Gábor Maksay ◽  
Joseph A. Marsh

The assembly of proteins into complexes is fundamental to nearly all biological signalling processes. Symmetry is a dominant feature of the structures of experimentally determined protein complexes, observed in the vast majority of homomers and many heteromers. However, some asymmetric structures exist, and asymmetry also often forms transiently, intractable to traditional structure determination methods. Here, we explore the role of protein complex symmetry and asymmetry in cellular signalling, focusing on receptors, transcription factors and transmembrane channels, among other signalling assemblies. We highlight a recurrent tendency for asymmetry to be crucial for signalling function, often being associated with activated states. We conclude with a discussion of how consideration of protein complex symmetry and asymmetry has significant potential implications and applications for pharmacology and human disease.


Development ◽  
2001 ◽  
Vol 128 (2) ◽  
pp. 193-205 ◽  
Author(s):  
K. Yun ◽  
S. Potter ◽  
J.L. Rubenstein

The telencephalon has two major subdivisions, the pallium and subpallium. The pallium, which primarily consists of glutamatergic cortical structures, expresses dorsal molecular markers, whereas the subpallium, which primarily consists of the GABAergic basal ganglia, expresses ventral molecular markers. Here, we present evidence that the progenitor and postmitotic cells flanking the pallial/subpallial boundary (PSB) in the embryonic mouse can be subdivided into multiple regions that express unique combinations of transcription factors. The domains that immediately flank the PSB are the ventral pallium (VP) and the dorsal lateral ganglionic eminence (dLGE). The early expression of the Pax6 and Gsh2 homeobox transcription factors overlaps in the region of the dLGE. Analyses of mice that lack functional alleles of either Gsh2 or Pax6 demonstrate that these genes have complementary roles in patterning the primordia flanking the PSB. In the Gsh2 mutants, the dLGE is respecified into a VP-like structure, whereas in the Pax6 mutants the VP is respecified into a dLGE-like structure. The role of Pax6 in dorsalizing the telencephalon is similar to its role in the spinal cord, supporting the hypothesis that some dorsoventral patterning mechanisms are used at all axial levels of the central nervous system.


Author(s):  
Si-Qiang Zheng ◽  
Huan-Xin Chen ◽  
Xiao-Cheng Liu ◽  
Qin Yang ◽  
Guo-Wei He

Ventricular septal defects (VSD) are the most common congenital heart defects (CHD). Studies have documented that ISL1 has a crucial impact on cardiac growth, but the role of variants in the ISL1 gene promoter in patients with VSD has not been explored. In 400 subjects (200 isolated and sporadic VSD patients: 200 healthy controls), we investigated the ISL1 gene promoter variant and performed cellular functional experiments by using the dual-luciferase reporter assay to verify the impact on gene expression. In the ISL1 promoter, 5 variants were found only in VSD patients by sequencing. Cellular functional experiments demonstrated that three variants decreased the transcriptional activity of the ISL1 promoter (P < 0.05). Further analysis with the online JASPAR database demonstrated that a cluster of putative binding sites for transcription factors may be altered by these variants, possibly resulting in change of ISL1 protein expression and VSD formation. Our study has for the first time identified novel variants in the ISL1 gene promoter region in the Han Chinese patients with isolated and sporadic VSD. Additionally, the cellular functional experiments, electrophoretic mobility shift assay, and bioinformatic analysis have demonstrated that these variants significantly alter the expression of the ISL1 gene and affect the binding of transcription factors, likely resulting in VSD. Therefore, this study may provide new insights into the role of the gene promoter region for a better understanding of genetic basis of the formation of CHD and may promote further investigations on mechanism of the formation of CHD.


Blood ◽  
2011 ◽  
Vol 118 (21) ◽  
pp. 3386-3386
Author(s):  
Elisa Bianchi ◽  
Paola Guglielmelli ◽  
Lorenzo Tozzi ◽  
Costanza Bogani ◽  
Simona Salati ◽  
...  

Abstract Abstract 3386 Deregulated expression of miRNAs is associated with neoplasia. We recently showed that miR-16-2 is overexpressed in CD34(+) cells of patients with polycythemia vera (PV) versus their normal counterparts and that deregulation of miR-16-2 contributes, in a way independent of JAK/STAT pathway activation, to the abnormal expansion of the erythroid lineage characterizing PV. In fact, forced expression of miR-16 in normal CD34+ cells stimulated erythroid maturation while exposure of PV CD34(+) cells to antagomirs against pre-miR-16-2 reduced erythroid colonies. Moreover, erythroid fate was impaired in mice injected with a miR-16 antagomir, indicating a role of miR-16 in normal erythropoiesis. Collectively these data identified miR-16-2 as a positive regulator of the erythropoiesis and linked the abnormal expansion toward the erythroid lineage to the overexpression of miR-16-2 in PV patients (Guglielmelli P, Blood, 117:6923–6927, 2011). However, the mechanisms underlying miR-16-2 overexpression are still unknown. In this project we aim to identify the transcription factors regulating miR-16-2 expression in normal and PV erythropoiesis. miR-16-2 is an intronic miRNA located within the SMC4 (Structural Maintenance of Chromosome 4) gene on chromosome 3. A functionally defined promoter of miR-16 has not been characterized yet. Therefore, (1) based on data from genome-wide studies of H3K4me3, H3K9/14Ac, RNA pol II-enrichment and nucleosome positioning identifying a RNA pol II-enriched region overlapping the SMC4 promoter for miR16-2 expression control and (2) based on the evidence of a correlation between the expression levels of this intronic miRNA and those of its host gene SMC4, we focused our attention on the transcriptional regulators of SMC4 gene. We screened the SMC4 gene promoter region in order to identify putative binding sites for transcription factors already known to be involved in erythroid differentiation, such as c-myb, KLF1 and GATA1. Next, we cloned the SMC4 promoter region between ∼20 bp downstream and 1200 bp upstream the Transcription Start Site into the pXP1 plasmid, upstream to the promoterless firefly luciferase reporter gene. HEK293T cells were transfected with the pXP1 vector carrying the Luciferase reporter gene under the SMC4 promoter control and increasing amounts of plasmid coding for either c-myb or KLF1. Luciferase activity measurements were done in duplicate and signals were normalized for transfection efficiency to the internal Renilla control. At least 3 independent experiments were performed for each of the transcription factors tested. Our data demonstrated that increasing levels of c-myb protein expression are able to transactivate SMC4 promoter-driven luciferase expression. In fact, increasing amounts of the c-myb-coding plasmid determined a dose-dependent increase in SMC4 promoter-driven luciferase activity (735+/−196, 995+/−286 and 1759+/−474 for 100, 200 and 400ng of c-myb-coding plasmid respectively, versus 590+/−190 for the empty plasmid control; average+/−SD values). Therefore, the c-myb-driven SMC4 promoter transactivation trend identified (P<0.01 in myb-coding versus empty vector transfected samples) points out the potential involvement of c-myb in SMC4/miR-16-2 upregulation during normal and/or pathologic erythroid differentiation. On the contrary, increasing levels of KLF1 expression failed to affect SMC4 promoter-driven luciferase gene expression, suggesting that a role for KLF1 in this process could be ruled out. Further experiments will elucidate the role of GATA1 in this process. In conclusion, our data demonstrated that c-myb is able to transactivate SMC4/miR16-2 expression, by shedding for the first time some light on the molecular players involved in normal and PV erythropoiesis. Despite the overwhelming body of studies demonstrating the key role of c-myb in the erythropoiesis, little is known on the molecular mechanisms of c-myb-driven erythroid differentiation. We recently gained insights in this process by demonstrating that c-myb supports erythropoiesis by transactivating KLF1 and LMO2 expression (Bianchi E, Blood, 116:e99–110, 2010). The present data suggest SMC4/miR16 transactivation as a new pathway through which c-myb affects the erythroid differentiation. However, further studies need to be performed to more deeply unravel this mechanism and its relevance in normal and PV erythropoiesis. Disclosures: No relevant conflicts of interest to declare.


2020 ◽  
Vol 48 (15) ◽  
pp. 8675-8685
Author(s):  
Eugene Baulin ◽  
Valeriy Metelev ◽  
Alexey Bogdanov

Abstract Along with nucleobase pairing, base-base stacking interactions are one of the two main types of strong non-covalent interactions that define the unique secondary and tertiary structure of RNA. In this paper we studied two subfamilies of nucleobase-inserted stacking structures: (i) with any base intercalated between neighboring nucleotide residues (base-intercalated element, BIE, i + 1); (ii) with any base wedged into a hydrophobic cavity formed by heterocyclic bases of two nucleotides which are one nucleotide apart in sequence (base-wedged element, BWE, i + 2). We have exploited the growing database of natively folded RNA structures in Protein Data Bank to analyze the distribution and structural role of these motifs in RNA. We found that these structural elements initially found in yeast tRNAPhe are quite widespread among the tertiary structures of various RNAs. These motifs perform diverse roles in RNA 3D structure formation and its maintenance. They contribute to the folding of RNA bulges and loops and participate in long-range interactions of single-stranded stretches within RNA macromolecules. Furthermore, both base-intercalated and base-wedged motifs participate directly or indirectly in the formation of RNA functional centers, which interact with various ligands, antibiotics and proteins.


2018 ◽  
Vol 19 (10) ◽  
pp. 3279 ◽  
Author(s):  
Duc-Hiep Bach ◽  
Nguyen Long ◽  
Thi-Thu-Trang Luu ◽  
Nguyen Anh ◽  
Sung Kwon ◽  
...  

Forkhead box (FOX) proteins are multifaceted transcription factors that are significantly implicated in cancer, with various critical roles in biological processes. Herein, we provide an overview of several key members of the FOXA, FOXC, FOXM1, FOXO and FOXP subfamilies. Important pathophysiological processes of FOX transcription factors at multiple levels in a context-dependent manner are discussed. We also specifically summarize some major aspects of FOX transcription factors in association with cancer research such as drug resistance, tumor growth, genomic alterations or drivers of initiation. Finally, we suggest that targeting FOX proteins may be a potential therapeutic strategy to combat cancer.


Genes ◽  
2019 ◽  
Vol 10 (12) ◽  
pp. 981 ◽  
Author(s):  
Chengcheng Liang ◽  
Anning Li ◽  
Sayed Haidar Abbas Raza ◽  
Rajwali Khan ◽  
Xiaoyu Wang ◽  
...  

The gene family with sequence similarity 13 member A (FAM13A) has recently been identified as a marker gene in insulin sensitivity and lipolysis. In this study, we first analyzed the expression patterns of this gene in different tissues of adult cattle and then constructed a phylogenetic tree based on the FAM13A amino acid sequence. This showed that subcutaneous adipose tissue had the highest expression in all tissues except lung tissue. Then we summarized the gene structure. The promoter region sequence of the gene was successfully amplified, and the −241/+54 region has been identified as the core promoter region. The core promoter region was determined by the unidirectional deletion of the 5’ flanking promoter region of the FAM13A gene. Based on the bioinformatics analysis, we examined the dual luciferase activity of the vector constructed by the mutation site, and the transcription factors ACSL1 and ASCL2 were found as transcriptional regulators of FAM13A. Moreover, electrophoretic mobility shift assay (EMSA) further validated the regulatory role of ACSL1 and ASCL2 in the regulation of FAM13A. ACSL1 and ASCL2 were finally identified as activating transcription factors. Our results provide a basis for the function of the FAM13A gene in bovine adipocytes in order to improve the deposition of fat deposition in beef cattle muscle.


Pneumologie ◽  
2012 ◽  
Vol 66 (06) ◽  
Author(s):  
HM Al-Tamari ◽  
M Eschenhagen ◽  
A Schmall ◽  
R Savai ◽  
HA Ghofrani ◽  
...  

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