Nuclear Receptor Research最新文献_第4页

Annotation of the Nuclear Receptors in an Estuarine Fish species, Fundulus heteroclitus. 一种河口鱼类核受体的注释。

Nuclear Receptor Research Pub Date : 2017-01-01 DOI: 10.11131/2017/101285

William S Baldwin, W Tyler Boswell, Gautam Ginjupalli, Elizabeth J Litoff

{"title":"Annotation of the Nuclear Receptors in an Estuarine Fish species, Fundulus heteroclitus.","authors":"William S Baldwin, W Tyler Boswell, Gautam Ginjupalli, Elizabeth J Litoff","doi":"10.11131/2017/101285","DOIUrl":"https://doi.org/10.11131/2017/101285","url":null,"abstract":"The nuclear receptors (NRs) are ligand-dependent transcription factors that respond to various internal as well as external cues such as nutrients, pheromones, and steroid hormones that play crucial roles in regulation and maintenance of homeostasis and orchestrating the physiological and stress responses of an organism. We annotated the Fundulus heteroclitus (mummichog; Atlantic killifish) nuclear receptors. Mummichog are a non-migratory, estuarine fish with a limited home range often used in environmental research as a field model for studying ecological and evolutionary responses to variable environmental conditions such as salinity, oxygen, temperature, pH, and toxic compounds because of their hardiness. F. heteroclitus have at least 74 NRs spanning all seven gene subfamilies. F. heteroclitus is unique in that no RXRα member was found within the genome. Interestingly, some of the NRs are highly conserved between species, while others show a higher degree of divergence such as PXR, SF1, and ARα. Fundulus like other fish species show expansion of the RAR (NR1B), Rev-erb (NR1D), ROR (NR1F), COUPTF (NR2F), ERR (NR3B), RXR (NR2B), and to a lesser extent the NGF (NR4A), and NR3C steroid receptors (GR/AR). Of particular interest is the co-expansion of opposing NRs, Reverb-ROR, and RAR/RXR-COUPTF.","PeriodicalId":30720,"journal":{"name":"Nuclear Receptor Research","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2017-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5552072/pdf/nihms884962.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"35316257","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 4

BINDING SITE ANALYSIS OF THE CAENORHABDITIS ELEGANS NR4A NUCLEAR RECEPTOR NHR-6 DURING DEVELOPMENT. 秀丽隐杆线虫nr4a核受体nhr-6发育过程中的结合位点分析。

Nuclear Receptor Research Pub Date : 2017-01-01 Epub Date: 2017-07-23 DOI: 10.11131/2017/101288

Brandon Praslicka, Jeremy S Harmson, Joohyun Kim, Vittobai Rashika Rangaraj, Aikseng Ooi, Chris R Gissendanner

{"title":"BINDING SITE ANALYSIS OF THE CAENORHABDITIS ELEGANS NR4A NUCLEAR RECEPTOR NHR-6 DURING DEVELOPMENT.","authors":"Brandon Praslicka, Jeremy S Harmson, Joohyun Kim, Vittobai Rashika Rangaraj, Aikseng Ooi, Chris R Gissendanner","doi":"10.11131/2017/101288","DOIUrl":"https://doi.org/10.11131/2017/101288","url":null,"abstract":"Members of the NR4A subfamily of nuclear receptors make up a highly conserved, functionally diverse group of transcription factors implicated in a multitude of cellular processes such as proliferation, differentiation, apoptosis, metabolism and DNA repair. The gene nhr-6, which encodes the sole C. elegans NR4A nuclear receptor homolog, has a critical role in organogenesis and regulates the development of the spermatheca organ system. Our previous work revealed that nhr-6 is required for spermatheca cell divisions in late L3 and early L4 and spermatheca cell differentiation during the mid L4 stage. Here, we utilized chromatin immunoprecipitation followed by next-generation sequencing (ChIP-seq) to identify NHR-6 binding sites during both the late L3/early L4 and mid L4 developmental stages. Our results revealed 30,745 enriched binding sites for NHR-6, ~70% of which were within 3 kb upstream of a gene transcription start site. Binding sites for a cohort of candidate target genes with probable functions in spermatheca organogenesis were validated through qPCR. Reproductive and spermatheca phenotypes were also evaluated for these genes following a loss-of-function RNAi screen which revealed several genes with critical functions during spermatheca organogenesis. Our results uncovered a complex nuclear receptor regulatory network whereby NHR-6 regulates multiple cellular processes during spermatheca organogenesis.","PeriodicalId":30720,"journal":{"name":"Nuclear Receptor Research","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2017-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5634515/pdf/nihms891763.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"35446438","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 2

Nuclear Receptor SHP: A Critical Regulator of miRNA and lncRNA Expression and Function. 核受体SHP：miRNA和lncRNA表达和功能的关键调节因子。

Nuclear Receptor Research Pub Date : 2017-01-01 Epub Date: 2017-12-21 DOI: 10.11131/2017/101312

Yongfeng Song, Shan Lu, Jiajun Zhao, Li Wang

引用次数: 3

CONSERVED AND EXAPTED FUNCTIONS OF NUCLEAR RECEPTORS IN ANIMAL DEVELOPMENT. 核受体在动物发育过程中的保守和适应性功能。

Nuclear Receptor Research Pub Date : 2017-01-01 DOI: 10.11131/2017/101305

Shari Bodofsky, Francine Koitz, Bruce Wightman

{"title":"CONSERVED AND EXAPTED FUNCTIONS OF NUCLEAR RECEPTORS IN ANIMAL DEVELOPMENT.","authors":"Shari Bodofsky, Francine Koitz, Bruce Wightman","doi":"10.11131/2017/101305","DOIUrl":"10.11131/2017/101305","url":null,"abstract":"The nuclear receptor gene family includes 18 members that are broadly conserved among multiple disparate animal phyla, indicating that they trace their evolutionary origins to the time at which animal life arose. Typical nuclear receptors contain two major domains: a DNA-binding domain and a C-terminal domain that may bind a lipophilic hormone. Many of these nuclear receptors play varied roles in animal development, including coordination of life cycle events and cellular differentiation. The well-studied genetic model systems of Drosophila, C. elegans, and mouse permit an evaluation of the extent to which nuclear receptor function in development is conserved or exapted (repurposed) over animal evolution. While there are some specific examples of conserved functions and pathways, there are many clear examples of exaptation. Overall, the evolutionary theme of exaptation appears to be favored over strict functional conservation. Despite strong conservation of DNA-binding domain sequences and activity, the nuclear receptors prove to be highly-flexible regulators of animal development.","PeriodicalId":30720,"journal":{"name":"Nuclear Receptor Research","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2017-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5761748/pdf/nihms906252.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"35736804","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Transcription Factors Synergistically Activated at the Crossing of the Restriction Point between G1 and S Cell Cycle Phases. Pathologic Gate Opening during Multi-Hit Malignant Transformation 转录因子在G1和S细胞周期期的限制点交叉处协同激活。多发恶性转化过程中的病理门打开

Nuclear Receptor Research Pub Date : 2016-12-17 DOI: 10.11131/2016/101201

N. Castagnino, Massimo E. Maffei, L. Tortolina, G. Zoppoli, D. Piras, A. Nencioni, A. Ballestrero, F. Patrone, S. Parodi

{"title":"Transcription Factors Synergistically Activated at the Crossing of the Restriction Point between G1 and S Cell Cycle Phases. Pathologic Gate Opening during Multi-Hit Malignant Transformation","authors":"N. Castagnino, Massimo E. Maffei, L. Tortolina, G. Zoppoli, D. Piras, A. Nencioni, A. Ballestrero, F. Patrone, S. Parodi","doi":"10.11131/2016/101201","DOIUrl":"https://doi.org/10.11131/2016/101201","url":null,"abstract":"Transcription factors (TFs) represent key regulators of gene-expression patterns controlling cell behavior. TFs are active at nuclear – chromatin levels. TFs do not act in isolation; small sets of TFs cooperate toward the transcription of sets of mRNAs and consequently the translation of new proteins (the molecular phenotypes of a cell). Most TFs are activated through a cascade of biochemical reactions mediated by receptors expressed on the target cell surface. Nuclear Receptors (NRs) are transcription factors activated instead by small hydrophobic molecules capable of crossing the plasma membrane. The convergence of different pathways on TFs and their posttranslational modifications ensure that the external stimuli generate appropriate and integrated responses. The reconstruction of the molecular anatomy of these pathways through Molecular Interactions Maps (MIMs) can depict these intricate interactions. A mathematical modeling approach simulates/mimics their mechanism of action in normal and pathological conditions. We can simulate the effect of virtual hits in neoplastic transformation as mutations/alterations in these pathways. We can also simulate the effect of targeted inhibitors on these deregulated pathways. This strategy can help to guide an appropriate combination of targeted drugs in the treatment of a cancer patient, a major innovative perspective of incoming years.","PeriodicalId":30720,"journal":{"name":"Nuclear Receptor Research","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2016-12-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"63479567","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

On the Pharmacology of Farnesoid X Receptor Agonists: Give me an "A", Like in "Acid" 论法内甾体X受体激动剂的药理学:给我一个“A”，就像“酸”一样

Nuclear Receptor Research Pub Date : 2016-12-06 DOI: 10.11131/2016/101207

E. Hambruch, O. Kinzel, C. Kremoser

引用次数: 6

Applying Computational Scoring Functions to Assess Biomolecular Interactions in Food Science: Applications to the Estrogen Receptors 应用计算评分函数评估食品科学中的生物分子相互作用:在雌激素受体中的应用

Nuclear Receptor Research Pub Date : 2016-10-20 DOI: 10.11131/2016/101202

F. Spyrakis, P. Cozzini, G. Kellogg

{"title":"Applying Computational Scoring Functions to Assess Biomolecular Interactions in Food Science: Applications to the Estrogen Receptors","authors":"F. Spyrakis, P. Cozzini, G. Kellogg","doi":"10.11131/2016/101202","DOIUrl":"https://doi.org/10.11131/2016/101202","url":null,"abstract":"During the last decade, computational methods, which were for the most part developed to study protein-ligand interactions and especially to discover, design and develop drugs by and for medicinal chemists, have been successfully applied in a variety of food science applications [1,2]. It is now clear, in fact, that drugs and nutritional molecules behave in the same way when binding to a macromolecular target or receptor, and that many of the approaches used so extensively in medicinal chemistry can be easily transferred to the fields of food science. For instance, nuclear receptors are common targets for a number of drug molecules and could be, in the same way, affected by the interaction with food or food-like molecules. \u0000Thus, key computational medicinal chemistry methods like molecular dynamics can be used to decipher protein flexibility and to obtain stable models for docking and scoring in food-related studies, and virtual screening is increasingly being applied to identify molecules with potential to act as endocrine disruptors, food mycotoxins, and new nutraceuticals [3,4,5]. All of these methods and simulations are based on protein-ligand interaction phenomena, and represent the basis for any subsequent modification of the targeted receptor's or enzyme's physiological activity. We describe here the energetics of binding of biological complexes, providing a survey of the most common and successful algorithms used in evaluating these energetics, and we report case studies in which computational techniques have been applied to food science issues. In particular, we explore a handful of studies involving the estrogen receptors for which we have a long-term interest.","PeriodicalId":30720,"journal":{"name":"Nuclear Receptor Research","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2016-10-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"63479491","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 1

QSAR Methods to Screen Endocrine Disruptors QSAR方法筛选内分泌干扰物

Nuclear Receptor Research Pub Date : 2016-08-13 DOI: 10.11131/2016/101203

Nicola Porta, A. Roncaglioni, M. Marzo, E. Benfenati

{"title":"QSAR Methods to Screen Endocrine Disruptors","authors":"Nicola Porta, A. Roncaglioni, M. Marzo, E. Benfenati","doi":"10.11131/2016/101203","DOIUrl":"https://doi.org/10.11131/2016/101203","url":null,"abstract":"The identification of endocrine disrupting chemicals (EDCs) is one of the important goals of environmental chemical hazard screening. We report on in silico methods addressing toxicological studies about EDCs with a special focus on the application of QSAR models for screening purpose. Since Estrogen-like (ER) activity has been extensively studied, the majority of the available models are based on ER-related endpoints. Some of these models are here reviewed and described. As example for their application, we screen an assembled dataset of candidate substitutes for some known EDCs belonging to the chemical classes of phthalates, bisphenols and parabens, selected considering their toxicological relevance and broad application, with the general aim of preliminary assessing their ED potential. The goal of the substitution processes is to advance inherently safer chemicals and products, consistent with the principles of green chemistry. Results suggest that the integration of a family of different models accounting for different endpoints can be a convenient way to describe ED as properly as possible and allow also both to increase the confidence of the predictions and to maximize the probability that most active compounds are correctly found.","PeriodicalId":30720,"journal":{"name":"Nuclear Receptor Research","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2016-08-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"63479533","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 8

Pregnane X Receptor and Cancer: Context-Specificity is Key. 妊娠X受体与癌症:语境特异性是关键。

Nuclear Receptor Research Pub Date : 2016-06-12 DOI: 10.11131/2016/101198

S. Pondugula, P. Pávek, S. Mani

引用次数: 47

GW501516 Ameliorates A Fructose-Induced Inflammation Independent of AT1r Downregulation in Kidney GW501516改善不依赖于AT1r下调的果糖诱导的肾脏炎症

Nuclear Receptor Research Pub Date : 2016-05-11 DOI: 10.11131/2016/101206

D. C. Magliano, I. Bringhenti, V. Souza-Mello

{"title":"GW501516 Ameliorates A Fructose-Induced Inflammation Independent of AT1r Downregulation in Kidney","authors":"D. C. Magliano, I. Bringhenti, V. Souza-Mello","doi":"10.11131/2016/101206","DOIUrl":"https://doi.org/10.11131/2016/101206","url":null,"abstract":"AT1r high activation is linked to low-grade inflammation and oxidative stress, which yield impaired renal function. This study aimed to verify if GW501516 could improve damage in the kidney of mice with high activation of AT1r. Mice were fed a high-fructose diet (HFru) for eight weeks to induce an activation of the AT1r, whereas the control group received standard chow. The animals were randomly divided into four groups and the administration of GW501516 lasted three weeks. Morphological outcomes, urine and plasma determinations were assessed. Renin and ACE/AT1r axis protein and gene expression were evaluated as well as inflammatory cytokines and proteins. Also, the protein and gene expression of the antioxidant enzymes were verified. GW501516 improved systolic blood pressure and urinary parameters in HFru group. Although GW501516 had no effects either on ACE/AT1r axis or renin expression, it improved the inflammatory state, with increased IκB-α protein expression and decreased ERK and JNK phosphorylation. No differences were found in oxidative stress. We conclude that GW501516 acts downstream AT1r activation, improving inflammatory pathways in the kidney of HFru fed model. This is the first report demonstrating the anti-inflammatory actions of GW501516 upon kidney independently of AT1r downregulation in an HFru model.","PeriodicalId":30720,"journal":{"name":"Nuclear Receptor Research","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2016-05-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"63479553","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 1