Molecular basis of transcription factor search patterns: in development and disease

2021 ◽  
Author(s):  
◽  
Alex McCann
2010 ◽  
Vol 2 ◽  
pp. BIC.S3793 ◽  
Author(s):  
Arvind D. Thakkar ◽  
Hemanth Raj ◽  
Debarshi Chakrabarti ◽  
Ravishankar ◽  
N. Saravanan ◽  
...  

A significant group of patient with estrogen receptor (ER) α positive breast tumors fails to appreciably respond to endocrine therapy. An increased understanding of the molecular basis of estrogen-mediated signal transduction and resultant gene expression may lead to novel strategies for treating breast cancer. In this study, we sought to identify the dysregulated genes in breast tumors related to ERα status. Microarray analyses of 31 tumor samples showed 108 genes differentially expressed in ERα (+) and ERα (–) primary breast tumors. Further analyses of gene lists indicated that a significant number of dysregulated genes were involved in mRNA transcription and cellular differentiation. The majority of these genes were found to have promoter-binding sites for E74-like factor 5 (ELF5; 54.6% genes), E2F transcription factor 1 (E2F1; 22.2% genes), and nuclear transcription factor Y alpha (NFYA; 32.4% genes). Six candidate genes ( NTN4, SLC7A8, MLPH, ENPP1, LAMB2, and PLAT) with differential expression were selected for further validation studies using RT-qPCR (76 clinical specimen) and immunohistochemistry (48 clinical specimen). Our studies indicate significant overexpression of all the six genes in ERα (+) breast tumors as compared to ERα (–) breast tumors. In vitro studies using T-47D breast cancer cell line confirmed the estrogen dependant expression of four of the above six genes ( SLC7A8, ENPP1, LAMB2, and PLAT). Collectively, our study provides further insights into the molecular basis of estrogen-dependent breast cancer and identifies “candidate biomarkers” that could be useful for predicting endocrine responsiveness.


Blood ◽  
2011 ◽  
Vol 118 (21) ◽  
pp. 1029-1029
Author(s):  
Jihyun Song ◽  
Donghoon Yoon ◽  
Perumal Thiagarajan ◽  
Josef T. Prchal

Abstract Abstract 1029 Red blood cells (RBCs) continuously transport large amount of oxygen over their life time and require precise mechanism to protect themselves from oxidative stress. RBCs cannot respond to rapid oxygen changes by synthesizing enzymes and other proteins. Chronic hypoxia enhances erythropoiesis with ensuing polycythemia. With return to normoxia, red cell mass is reduced by neocytolysis, characterized by selective hemolysis of the young RBCs. Neocytolysis was described in astronauts, in those descending from high-altitude, and in newborn babies leaving hypoxic environment of uterus. While it has been suggested that neocytolysis is caused by very low erythropoietin levels, its molecular basis remains obscure. However, we argue against this postulate since RBCs lack pathway for erythropoietin signaling. We hypothesize that rapid changes of hypoxia-regulated hypoxia-inducible transcription factors (HIFs) regulated genes (other than erythropoietin) may be responsible, one such a gene (BNIP3L/NIX) regulates mitochondrial autophagy. Upon normoxic return young RBCs generated in hypoxia cannot cope because of decreased levels of oxidant protecting defenses regulated by HIF-dependent FOXO3a transcription factor. In order to test this hypothesis, we created an animal model depicted in Figure 1. We placed C57/BL6 mice in a hypoxia chamber at 12 % O2, (equivalent to 4500 m of altitude) for 10 days and then returned them to a normoxic condition. We measured hematocrit levels and reticulocyte count before and after hypoxia treatment.Fig. 1Hematocrit level and reticulocyte count before hypoxia and post hypoxiaFig. 1. Hematocrit level and reticulocyte count before hypoxia and post hypoxia Legend: BH: Before Hypoxia, PH: Post Hypoxia *; P value ≤ 0.05, **; P value ≤0.01, ***; P value ≤0.001, P value calculated using student T test comparing values before hypoxia. Epo levels increased 1.6 fold during hypoxia and then reduced up to undetectable level at PH day 4. Then Epo gradually increased to ∼3 fold during PH day 10∼28. During PH day 10∼21, the mice became anemic, even though Epo and reticulocytes remained high. These results suggest that neocytolysis occurs after several days of exposure to normoxia and it is not caused by Epo mechanism. To investigate the molecular basis of the observed neocytolysis in this mouse model, we measured the mitochondrial content in reticulocytes, anti-oxidative enzyme activities (glutathione peroxidase and reductase, catalase, and superoxide dismutase) that scavenge reactive oxygen species in RBCs, possibly coexistent with up-regulation of mitochondrial content upon normoxic return. Reticulocytes at returning normoxia generated more mitochondria several days after normoxic return, In contrast catalase activity was reduced during hypoxia and at PH day 4, but by PH day 10 its activity increased, and the catalase activity decrease coincided with a decrease in hematocrit. To investigate whether hypoxia drives neocytolysis under our conditions, we tested 2 known HIF target genes, Bnip3L (also called Nix), a pro-apoptotic protein that causes mitochondrial autophagy. Bnip3L mRNA was induced 9x during hypoxia and reduced 2x at PH day 6, compared to before hypoxia. We also analyzed Foxo3a, a transcription factor, in sorted reticulocytes (CD71+/TER119+/Mitochondria+) which regulates cellular stress responses such as catalase and superoxide dismutase (SOD). Foxo3a was slightly increased during hypoxia and reduced 4x at PH day 6 from levels before hypoxia. In conclusion, we developed mouse model to study neocytolysis. Our data suggest that increased mitochondria retained by Bnip3L repression leads to an accumulation of reactive oxygen species (whether in reticulocytes, platelets or leukocytes), and that young RBCs formed in hypoxia with insufficient antioxidant enzyme activity cannot survive because of excessive reactive oxygen species, with ensuing hemolysis. Studies of the role of other blood cells, as well as human studies of mountain climbers upon their return to sea level, are in progress. Disclosures: No relevant conflicts of interest to declare.


Blood ◽  
2008 ◽  
Vol 112 (5) ◽  
pp. 2081-2088 ◽  
Author(s):  
Belinda K. Singleton ◽  
Nicholas M. Burton ◽  
Carole Green ◽  
R. Leo Brady ◽  
David J. Anstee

Abstract Comparison of normal erythroblasts and erythroblasts from persons with the rare In(Lu) type of Lu(a-b-) blood group phenotype showed increased transcription levels for 314 genes and reduced levels for 354 genes in In(Lu) cells. Many erythroid-specific genes (including ALAS2, SLC4A1) had reduced transcript levels, suggesting the phenotype resulted from a transcription factor abnormality. A search for mutations in erythroid transcription factors showed mutations in the promoter or coding sequence of EKLF in 21 of 24 persons with the In(Lu) phenotype. In all cases the mutant EKLF allele occurred in the presence of a normal EKLF allele. Nine different loss-of-function mutations were identified. One mutation abolished a GATA1 binding site in the EKLF promoter (−124T>C). Two mutations (Leu127X; Lys292X) resulted in premature termination codons, 2 (Pro190LeufsX47; Arg319GlufsX34) in frameshifts, and 4 in amino acid substitution of conserved residues in zinc finger domain 1 (His299Tyr) or domain 2 (Arg328Leu; Arg328His; Arg331Gly). Persons with the In(Lu) phenotype have no reported pathology, indicating that one functional EKLF allele is sufficient to sustain human erythropoiesis. These data provide the first description of inactivating mutations in human EKLF and the first demonstration of a blood group phenotype resulting from mutations in a transcription factor.


2017 ◽  
Vol 86 (1) ◽  
Author(s):  
Natália Guimarães Sampaio ◽  
Emily Marie Eriksson ◽  
Louis Schofield

ABSTRACTImmunity toPlasmodium falciparummalaria is slow to develop, and it is often asserted that malaria suppresses host immunity, although this is poorly understood and the molecular basis for such activity remains unknown.P. falciparumerythrocyte membrane protein 1 (PfEMP1) is a virulence factor that plays a key role in parasite-host interactions. We investigated the immunosuppressive effect of PfEMP1 on monocytes/macrophages, which are central to the antiparasitic innate response. RAW macrophages and human primary monocytes were stimulated with wild-type 3D7 or CS2 parasites or transgenic PfEMP1-null parasites. To study the immunomodulatory effect of PfEMP1, transcription factor activation and cytokine and chemokine responses were measured. The level of activation of NF-κB was significantly lower in macrophages stimulated with parasites that express PfEMP1 at the red blood cell surface membrane than in macrophages stimulated with PfEMP1-null parasites. Modulation of additional transcription factors, including CREB, also occurred, resulting in reduced immune gene expression and decreased tumor necrosis factor (TNF) and interleukin-10 (IL-10) release. Similarly, human monocytes released less IL-1β, IL-6, IL-10, monocyte chemoattractant protein 1 (MCP-1), macrophage inflammatory protein 1α (MIP-1α), MIP-1β, and TNF specifically in response to VAR2CSA PfEMP1-containing parasites than in response to PfEMP1-null parasites, suggesting that this immune regulation by PfEMP1 is important in naturally occurring infections. These results indicate that PfEMP1 is an immunomodulatory molecule that affects the activation of a range of transcription factors, dampening cytokine and chemokine responses. Therefore, these findings describe a potential molecular basis for immune suppression byP. falciparum.


2020 ◽  
Author(s):  
Bin Li ◽  
Li-Si Zheng ◽  
Chen-Min Zhang ◽  
Qiao-Juan Huang ◽  
Yan-Hua Guo ◽  
...  

AbstractThe CREB1 gene encodes a pleiotropic transcription factor that frequently dysregulated in cancers. CREB1 can regulates tumour cell status of proliferation or migration, however, the molecular basis for this switch involvement in cell plasticity has not been fully understood. Here, we show that knocking out CREB1 triggered a remarkable effect of epithelial-mesenchymal transition (EMT) and led to the occurrence of inhibited proliferation and enhanced motility in cancer cells. Mechanistically, CREB1-knockout cells showed arrest in the G0/G1 phase as a result of impaired CREB1-dependent transcription of CCAT1 and E2F1. Interestingly, the competition between the coactivator CBP/p300 for CREB1 and p65 leads to the activation of the NF-κB pathway in cells with CREB1 disrupted, which induces an EMT phenotype and enhances motility. These studies identified previously unknown mechanisms of CREB1 in cell plasticity via its lncRNA and protein effector pathways, revealing an important feature that should be considered in CREB1-targeted tumour therapies.


Author(s):  
Jianying Qin ◽  
Le Guo ◽  
Fan Ye ◽  
Shi Kang ◽  
Dan Sun ◽  
...  

Deciphering the molecular mechanisms underlying insect resistance to Cry toxins produced by Bacillus thuringiensis (Bt) is pivotal for the sustainable utilization of Bt biopesticides and transgenic Bt crops. Previously, we identified that MAPK-mediated reduced expression of the PxABCB1 gene is associated with Bt Cry1Ac resistance in the diamondback moth, Plutella xylostella (L.). However, the underlying transcriptional regulation mechanism remains enigmatic. Herein, the PxABCB1 promoter in Cry1Ac-susceptible and Cry1Ac-resistant P. xylostella strains was cloned and analyzed and found to contain a putative Jun binding site (JBS). A dual-luciferase reporter assay and yeast one-hybrid assay (Y1H) demonstrated that the transcription factor PxJun repressed PxABCB1 expression by interacting with this JBS. The expression levels of PxJun were increased in the midguts of all resistant strains compared to the susceptible strain. Silencing of PxJun expression significantly elevated PxABCB1 expression and Cry1Ac susceptibility in the resistant NIL-R strain, and silencing of PxMAP4K4 expression decreased PxJun expression and also increased PxABCB1 expression. These results indicate that MAPK-activated PxJun suppresses PxABCB1 expression to confer Cry1Ac resistance in P. xylostella, deepening our understanding of the transcriptional regulation of midgut Cry receptor genes and the molecular basis of insect resistance to Bt Cry toxins. Importance The transcriptional regulation mechanisms underlying reduced expression of Bt toxin receptor genes in Bt-resistant insects remain elusive. This study unveils that a transcription factor PxJun activated by the MAPK signaling pathway represses PxABCB1 expression and confers Cry1Ac resistance in P. xylostella. Our results provide new insights into the transcriptional regulation mechanisms of midgut Cry receptor genes and deepen our understanding of the molecular basis of insect resistance to Bt Cry toxins. To our knowledge, this study identified the first transcription factor that can be involved in the transcriptional regulation mechanisms of midgut Cry receptor genes in Bt-resistant insects.


2021 ◽  
Author(s):  
Natacha Comandante-Lou ◽  
Douglas G. Baumann ◽  
Mohammad Fallahi-Sichani

SummaryCellular plasticity associated with fluctuations in transcriptional programs allows individual cells in a tumor to adopt heterogeneous differentiation states and switch phenotype during their adaptive responses to therapies. Despite increasing knowledge of such transcriptional programs, the molecular basis of cellular plasticity remains poorly understood. Here, we combine multiplexed transcriptional and protein measurements at population and single-cell levels with multivariate statistical modeling to show that the state of AP-1 transcription factor network plays a unifying role in explaining cellular plasticity in melanoma. We find that a tightly regulated balance between AP-1 factors cJUN, FRA2, FRA1 and cFOS determines the intrinsic diversity of differentiation states and adaptive responses to MAPK inhibitors in individual melanoma cells. Perturbing this balance through genetic depletion of specific AP-1 proteins, or by MAPK inhibitors, shifts cellular heterogeneity in a predictable fashion. Thus, AP-1 may serve as a critical node for manipulating cellular plasticity with potential therapeutic implications.


eLife ◽  
2020 ◽  
Vol 9 ◽  
Author(s):  
Haluk Lacin ◽  
W Ryan Williamson ◽  
Gwyneth M Card ◽  
James B Skeath ◽  
James W Truman

The Drosophila ventral nerve cord (VNC) is composed of thousands of neurons born from a set of individually identifiable stem cells. The VNC harbors neuronal circuits required to execute key behaviors, such as flying and walking. Leveraging the lineage-based functional organization of the VNC, we investigated the developmental and molecular basis of behavior by focusing on lineage-specific functions of the homeodomain transcription factor, Unc-4. We found that Unc-4 functions in lineage 11A to promote cholinergic neurotransmitter identity and suppress the GABA fate. In lineage 7B, Unc-4 promotes proper neuronal projections to the leg neuropil and a specific flight-related take-off behavior. We also uncovered that Unc-4 acts peripherally to promote proprioceptive sensory organ development and the execution of specific leg-related behaviors. Through time-dependent conditional knock-out of Unc-4, we found that its function is required during development, but not in the adult, to regulate the above events.


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