Herein we report the structure-activity and structure-physicochemical property relationships of a series of class I selective ortho-aminoanilides targeting the “foot-pocket” in HDAC1&2. To balance the structural benefits and the physicochemical disadvantages of these substances, we started with a set of HDACi related to tacedinaline (CI-994) and evaluated their solubility, lipophilicity (log D7.4) and inhibition of selected HDAC isoforms. Subsequently, we selected the most promising “capless” HDACi and transferred its ZBG to our previously published scaffold featuring a peptoid-based cap group. The resulting hit compound 10c (LSH-A54) showed favorable physicochemical properties and is a potent, selective HDAC1/2 inhibitor. The following evaluation of its slow binding properties revealed that LSH-A54 binds tightly to HDAC1 in an induced-fit mechanism. The potent HDAC1/2 inhibitory properties were reflected by attenuated cell migration in a modified wound healing assay and reduced cell viability in a clonogenic survival assay in selected breast cancer cell lines.

Stem cell biology is an exciting field that will lead to significant advancements in science and medicine. We hypothesize that inducing the expression of stem cell genes, using the embryonic stem cell gene nanog, will reprogram cells and dedifferentiate human mesenchymal stem cells into pluripotent stem cells capable of neural differentiation. The aims of initial studies are as follows: Aim 1: Demonstrate that forced expression of the embryonic stem cell gene nanog induces changes in human mesenchymal stem cells to an embryonic stem cell-like phenotype. Aim 2: Demonstrate that induced expression of nanog up-regulates the expression of multiple embryonic stem cell markers and expands the differentiation potential of the stem cells. Aim 3: Demonstrate that these nanog-expressing stem cells have the ability to differentiate along neural lineages in vitro and in vivo, while mock-transfected cells have an extremely limited capacity for transdifferentiation. Alternatively, we hypothesize that embryonic stem cell genes can become activated in malignant gliomas and differentially regulate the subpopulation of cancer stem cells. This study examines the role of embryonic stem cell genes in transformed cells, particularly cancer stem cells. These studies explore has the following objectives: Aim 1: Isolate different sub-populations of cells from tumors and characterize cells with stem cell-like properties. Aim 2: Characterize the expression of embryonic stem cell markers in the sub-population of cancer stem cells. Aim 3: Examine the effects of histone deacetylase inhibitors at inhibiting the growth and reducing the expression of stem cell markers. Our research has demonstrated the potential of the embryonic transcription factor, nanog, at inducing dedifferentiation of human bone marrow mesenchymal stem cells and allowing their recommitment to a neural lineage. Specifically, we used viral and non-viral vectors to induce expression of NANOG, which produced an embryonic stem cell-like morphology in transduced cells. We characterized these cells using real-time PCR and immunohistochemical staining and find an up-regulation of genes responsible for pluripotency and self-renewal. Embryonic stem cell markers including Sox2, Oct4 and TERT were up-regulated following delivery of nanog. The role of nanog in the expression of these markers was further demonstrated in our induced-differentiation method where we transfected embryonic stem cell-like cells, that have been transduced with nanog flanked by two loxP sites, with a vector containing Cre-recominase. We tested the ability of these nanog-transfected cells to undergo neural differentiation in vitro using a neural co-culture system or in vivo following intracranial transplantation. Our next study characterized patient-derived glioblastoma cancer stem cells. We found that cells isolated from serum-free stem cell cultures were enriched for stem cell markers and were more proliferative than the bulk population of cells grown in convention serum-supplemented media. These cancer stem cells expressed embryonic stem cell markers NANOG and OCT4 whereas non-tumor-derived neural stem cells do not. Moreover, the expression of stem cell markers was correlated with enhanced proliferation and could serve as a measure of drug effectiveness. We tested two different histone deacetylase inhibitors, trichostatin A and valproic acid, and found that both inhibited proliferation and significantly reduced expression of stem cell markers in our cancer stem cell lines. These data demonstrate the potential use of stem cell genes as therapeutic markers and supports the hypothesis that cancer stem cells are a major contributor to brain tumor malignancy.

Yes / Seasonal animals undergo changes in physiology and behavior between summer and winter conditions. These changes are in part driven by a switch in a series of hypothalamic genes under transcriptional control by hormones and, of recent interest, inflammatory factors. Crucial to the control of transcription are histone deacetylases (HDACs), generally acting to repress transcription by local histone modification. Seasonal changes in hypothalamic HDAC transcripts were investigated in photoperiod-sensitive F344 rats by altering the day-length (photoperiod). HDAC4, 6 and 9 were found to change in expression. The potential influence of HDACs on two hypothalamic signaling pathways that regulate transcription, inflammatory and nuclear receptor signaling, was investigated. For inflammatory signaling the focus was on NF-κB because of the novel finding made that its expression is seasonally regulated in the rat hypothalamus. For nuclear receptor signaling it was discovered that expression of retinoic acid receptor beta was regulated seasonally. HDAC modulation of NF-κB-induced pathways was examined in a hypothalamic neuronal cell line and primary hypothalamic tanycytes. HDAC4/5/6 inhibition altered the control of gene expression (Fos, Prkca, Prkcd and Ptp1b) by inducers of NF-κB that activate inflammation. These inhibitors also modified the action of nuclear receptor ligands thyroid hormone and retinoic acid. Thus seasonal changes in HDAC4 and 6 have the potential to epigenetically modify multiple gene regulatory pathways in the hypothalamus that could act to limit inflammatory pathways in the hypothalamus during long-day summer-like conditions. / Biotechnology and Biological Sciences Research Council (BBSRC)

Xiao, Zhangang. / Thesis (Ph.D.)--Chinese University of Hong Kong, 2013. / Includes bibliographical references (leaves 118-131). / Electronic reproduction. Hong Kong : Chinese University of Hong Kong, [2012] System requirements: Adobe Acrobat Reader. Available via World Wide Web. / Abstracts also in Chinese.

A clonagem de mamíferos por transferência nuclear de células somáticas (TNCS) ainda é afetada pela baixa eficiência. As modificações epigenéticas estabelecidas durante o processo de diferenciação celular estão entre os principais fatores. Uma vez que estas modificações atuam como barreiras epigenéticas restringindo a reprogramação do núcleo somático. Considerando isso, a maioria dos fatores que promovem a descondensação da cromatina, incluindo os inibidores das Histonas Deacetilases (HDACis), tem sido demonstrado aumentarem a eficiência da reprogramação nuclear, tornando o seu uso comum para melhorar as taxas da TNCS. Neste trabalho, nós testamos dois inibidores das histonas deacetilases: o Ácido Valpróico (VPA) e o Ácido β-Hidróxibutírico (BOHB), sendo um farmacológico e o outro um metabólito endógeno na TNCS. Nosso objetivo era testar se o tratamento de células doadoras de núcleo ou zigotos com estes HDACis melhoravam o desenvolvimento de embriões bovinos clonados. Em relação ao VPA, nós observamos que o tratamento de fibroblastos com o VPA aumentou a acetilação das histonas e a expressão de genes importantes para o desenvolvimento como IGF2R e PPARGC1A. Entretanto, quando as células tratadas foram usadas como doadoras de núcleo, não foi observado diferença nos níveis de acetilação das H3K9 entre os grupos. Além disso, as alterações foram rapidamente removidas após a transferência nuclear. Em relação as taxas de desenvolvimento, o uso de células tratadas como doadoras de núcleo não resultou em diferença durante o desenvolvimento pré- e pós-implantacional. Em relação ao BOHB, nós executamos um série de experimentos para testar se esta molécula age como um inibidor das HDACs em bovinos. Nós observamos que fibroblastos tratados com BOHB apresentam aumento nos níveis globais de H3K9ac. O tratamento altera a expressão de genes importantes como os transportadores de glicose e a enzima chave no metabolismo lipídico SCD. Também, nós demonstramos que este metabólito é capaz de alterar uma marca epigenética em zigotos clonados, que persiste até o estágio de blastocisto. Entretanto, o tratamento dos zigotos com este metabólito endógeno não aumentou a taxa de desenvolvimento pré-implantacional, embora tenha alterado a expressão de um fator de transcrição que protege embriões contra estresse oxidativo, o FOXO3a. O tratamento de zigotos partenogenéticos com BOHB não afetou o desenvolvimento embrionário, nem a produção de ATP, sugerindo que o BOHB não apresenta efeitos tóxicos como anteriormente pensado. Concluindo, os resultados deste trabalho mostram que a inibição das HDACs através de uma molécula farmacológica ou um metabólito endógeno, não aumenta a eficiência da TNCS em bovinos. Entretanto, aqui nós mostramos que o corpo cetônico BOHB pode ser um elo de ligação entre o ambiente extracelular e a regulação do metabolismo. E serve como um modelo in vitro para testar como distúrbios metabólicos como a cetose afeta o metabolismo e epigenoma celular e embrionário em bovinos / Cloning of mammals by somatic cell nuclear transfer (SCNT) is still plagued by the low efficiency. The epigenetic marks established during the cell differentiation process are among the main cause. These modifications act as a barrier restricting the nuclear reprogramming process of somatic nuclei. Based on this, molecules that promotes chromatin decondensing, including Histone Deacetylases inhibitors (HDACis), has been demonstrated increase the efficiency of nuclear reprogramming, making their use common on SCNT procedure. Herein, we tested two histone deacetylase inhibitors: Valproic Acid and β-hydroxybutyric Acid, the former a pharmacological drug and the latter, an endogenous metabolite on SCNT. Our objective was to test whether the donor cells treatment or zygotes with these HDACis improve the bovine cloned embryos development. Regarding the VPA, we observed that fibroblasts treatment with VPA increases the histone acetylation and expression of developmentally important genes such as IGF2R and PPARGC1A. However, when treated cells were used as nuclear donors, we did not observe difference on H3K9ac levels between the groups. Moreover, the alterations were quickly removed after SCNT. Regarding the developmental rates, the use of treated cells as nuclear donors did not affect the pre- and post-implantation development. In the second experiment, we used the BOHB in a series of experiments to test whether this molecule acts as a histone deacetylase inhibitor in bovines. We observed that treatment of fibroblasts with BOHB increased the global levels of H3K9ac. Also, treatment alters the expression of important genes such as glucose transporters and a key enzyme regulating lipid synthesis. Additionally, we demonstrated that this metabolite affect at least one epigenetic mark in cloned zygotes, that lasts until the blastocyst stage. However, zygote treatment with this endogenous metabolite did not increase the pre-implantation developmental rates, albeit increased the expression of a transcription factor that protects cells against oxidative stress, the FOXO3a. Treatment of parthenogenetic embryos with BOHB did not affect the embryo development, neither ATP production, suggesting that BOHB is not toxic as previously believed. Concluding, the results presented here shows that the HDAC inhibition through a pharmacological compound or an endogenous metabolite did not increase the efficiency of bovine SCNT. However, here we showed that the ketone body BOHB might be a nexus between the extracellular environment and the cellular metabolism. Also, it can used as a in vitro model to interrogate questions about does metabolic disturbances such as ketosis in cattle affects the epigenome and cellular metabolism in bovines

Within the lymphocyte lineage, GATA-3 is a major transcription factor implicated in the regulation of Th1/Th2 differentiation by promoting the expression of the Th2 cytokines, such as IL-4, IL-5, IL-10 and IL-13. Although the role of GATA-3 in the development of the Th2 lineage has been extensively described in the literature, the molecular mechanisms underlying its activity remain to be clarified. Here, we investigated whether GATA-3 might be regulated by reversible acetylation. In vivo, GATA-3 associates with class I and III HDACs. Biochemical studies unraveled the specific association of GATA-3 with the class III member SIRT1. Association with SIRT1 leads to the inhibition of GATA-3-induced IL-5 transcription. Using siRNA, we further show that SIRT1 promotes destabilization of GATA-3. Interestingly, nicotinamide, a specific inhibitor of SIRTs had no effect on the ability of SIRT1 to destabilize GATA-3 and to repress its transcriptional activity. In addition, a catalytic-defective mutant of SIRT1 (H363Y) shows similar effects to wild-type SIRT1, demonstrating that the deacetylase activity of SIRT1 is not required for its regulation of GATA-3. For the first time, our study indicates that SIRT1 is functionally linked to GATA-3. Moreover, our results also suggest that some important SIRT1 functions may not require its deacetylase activity.

La schistosomiase représente actuellement la seconde endémie parasitaire mondiale après le paludisme. Annuellement, cette pathologie est responsable de 280 000 décès et 700 millions d'individus y sont exposés dans 74 pays à travers le monde. Actuellement, le traitement de la schistosomiase repose sur l'utilisation d'un seul médicament, le Praziquantel®. Ainsi, le développement de nouveaux médicaments est devenu une priorité absolue pour l'OMS. Dans cette étude, notre objectif a été d'identifier de nouvelles cibles thérapeutiques afin de développer de nouveaux précurseurs de médicaments. Au cours de ce projet, nous avons focalisé nos recherches sur les enzymes impliquées dans la modification des histones et plus particulièrement sur les sirtuines, qui sont des lysines désacétylases NAD+ dépendantes.Dans une première partie, nous avons caractérisé 5 orthologues de sirtuines de mammifères chez Schistosoma mansoni (SmSirt1, 2, 5, 6 et 7). De plus, nous avons étudié le potentiel des sirtuines comme cibles thérapeutiques pour le traitement de la schistosomiase en évaluant la toxicité d'inhibiteurs génériques de sirtuines humaines sur des parasites maintenus en culture. Ainsi, nous avons montré que les inhibiteurs de sirtuines humaines affectent in vitro la viabilité des schistosomules ainsi que la stabilité de l'accouplement et la production d'oeufs des vers adultes. De plus, ces inhibiteurs induisent des changements morphologiques de l'appareil génital du ver femelle.Dans une seconde partie, nous avons entrepris d'étudier plus spécifiquement le rôle de SmSirt2 en tant que cible thérapeutique. Ainsi, l'expression de la protéine recombinante en bactérie E. coli (collaboration: C. Romier, IGBMC, Illkirch) ainsi que l'optimisation d'un dosage fluorimétrique nous ont permis de montrer que SmSirt2 présente une activité lysine désacétylase in vitro (collaboration: M. Jung, Université Albert-Ludwigs, Freibourg). De plus, l'utilisation de ce dosage nous a permis de mettre en place le criblage à haut débit d'une chimiothèque de plus de 80 000 composés afin d'identifier de nouvelles molécules inhibitrices de l'enzyme SmSirt2 (collaboration: J. Schultz, Kancera AB, Stockholm). Les composés les plus prometteurs, ont été testés in vitro sur des parasites en culture. Les résultats obtenus démontrent que les inhibiteurs de SmSirt2 affectent également la viabilité des schistosomules ainsi que la stabilité de l'accouplement et la production d'oeufs des vers adultes.Dans une dernière partie, nous avons mis en place un criblage d'une banque d'ADNc de vers adultes par la technique du double hybride en levure dans le but d'identifier les partenaires protéiques de Sirt1 chez S. mansoni. L'analyse partielle des résultats nous a permis de mettre en évidence que SmSirt1 interagit avec plusieurs protéines impliquées dans la régulation des gènes chez le schistosome. Au cours de ce projet, nous avons également développé et optimisé un protocole permettant d'étudier l'activité enzymatique de SmSirt1 par injection d'ARNm dans des ovocytes de Xénope. Ainsi, nous avons pu montrer que le sirtinol et la salermide, deux inhibiteurs de Sirt1 humaine, présentent également une activité inhibitrice sur l'enzyme du parasite (collaboration: K. Cailliau, Université des Sciences et Technologies, Lille).L'ensemble des résultats obtenus au cours de ce projet de thèse suggère que les sirtuines sont des cibles thérapeutiques potentielles dans le traitement de la schistosomiase. Parmi les 5 orthologues identifiés chez S. mansoni, SmSirt2 semble une cible prometteuse. De plus, le criblage à haut débit que nous avons réalisé sur l'enzyme recombinante a permis d'identifier des molécules qui, après bio-optimisation, pourront être des candidats médicaments. Pour finir, ces résultats participent à une meilleure compréhension du rôle biologique des sirtuines chez S. mansoni et plus particulièrement sur leur implication dans la survie et la reproduction du parasite.

The entire dissertation/thesis text is included in the research.pdf file; the official abstract appears in the short.pdf file (which also appears in the research.pdf); a non-technical general description, or public abstract, appears in the public.pdf file. Title from PDF of title page (University of Missouri--Columbia, viewed on April 6, 2010). Vita. Thesis advisor: Shivendra D. Shukla. "August 2008" Includes bibliographical references

A clonagem de mamíferos por transferência nuclear de células somáticas (TNCS) ainda é afetada pela baixa eficiência. As modificações epigenéticas estabelecidas durante o processo de diferenciação celular estão entre os principais fatores. Uma vez que estas modificações atuam como barreiras epigenéticas restringindo a reprogramação do núcleo somático. Considerando isso, a maioria dos fatores que promovem a descondensação da cromatina, incluindo os inibidores das Histonas Deacetilases (HDACis), tem sido demonstrado aumentarem a eficiência da reprogramação nuclear, tornando o seu uso comum para melhorar as taxas da TNCS. Neste trabalho, nós testamos dois inibidores das histonas deacetilases: o Ácido Valpróico (VPA) e o Ácido β-Hidróxibutírico (BOHB), sendo um farmacológico e o outro um metabólito endógeno na TNCS. Nosso objetivo era testar se o tratamento de células doadoras de núcleo ou zigotos com estes HDACis melhoravam o desenvolvimento de embriões bovinos clonados. Em relação ao VPA, nós observamos que o tratamento de fibroblastos com o VPA aumentou a acetilação das histonas e a expressão de genes importantes para o desenvolvimento como IGF2R e PPARGC1A. Entretanto, quando as células tratadas foram usadas como doadoras de núcleo, não foi observado diferença nos níveis de acetilação das H3K9 entre os grupos. Além disso, as alterações foram rapidamente removidas após a transferência nuclear. Em relação as taxas de desenvolvimento, o uso de células tratadas como doadoras de núcleo não resultou em diferença durante o desenvolvimento pré- e pós-implantacional. Em relação ao BOHB, nós executamos um série de experimentos para testar se esta molécula age como um inibidor das HDACs em bovinos. Nós observamos que fibroblastos tratados com BOHB apresentam aumento nos níveis globais de H3K9ac. O tratamento altera a expressão de genes importantes como os transportadores de glicose e a enzima chave no metabolismo lipídico SCD. Também, nós demonstramos que este metabólito é capaz de alterar uma marca epigenética em zigotos clonados, que persiste até o estágio de blastocisto. Entretanto, o tratamento dos zigotos com este metabólito endógeno não aumentou a taxa de desenvolvimento pré-implantacional, embora tenha alterado a expressão de um fator de transcrição que protege embriões contra estresse oxidativo, o FOXO3a. O tratamento de zigotos partenogenéticos com BOHB não afetou o desenvolvimento embrionário, nem a produção de ATP, sugerindo que o BOHB não apresenta efeitos tóxicos como anteriormente pensado. Concluindo, os resultados deste trabalho mostram que a inibição das HDACs através de uma molécula farmacológica ou um metabólito endógeno, não aumenta a eficiência da TNCS em bovinos. Entretanto, aqui nós mostramos que o corpo cetônico BOHB pode ser um elo de ligação entre o ambiente extracelular e a regulação do metabolismo. E serve como um modelo in vitro para testar como distúrbios metabólicos como a cetose afeta o metabolismo e epigenoma celular e embrionário em bovinos / Cloning of mammals by somatic cell nuclear transfer (SCNT) is still plagued by the low efficiency. The epigenetic marks established during the cell differentiation process are among the main cause. These modifications act as a barrier restricting the nuclear reprogramming process of somatic nuclei. Based on this, molecules that promotes chromatin decondensing, including Histone Deacetylases inhibitors (HDACis), has been demonstrated increase the efficiency of nuclear reprogramming, making their use common on SCNT procedure. Herein, we tested two histone deacetylase inhibitors: Valproic Acid and β-hydroxybutyric Acid, the former a pharmacological drug and the latter, an endogenous metabolite on SCNT. Our objective was to test whether the donor cells treatment or zygotes with these HDACis improve the bovine cloned embryos development. Regarding the VPA, we observed that fibroblasts treatment with VPA increases the histone acetylation and expression of developmentally important genes such as IGF2R and PPARGC1A. However, when treated cells were used as nuclear donors, we did not observe difference on H3K9ac levels between the groups. Moreover, the alterations were quickly removed after SCNT. Regarding the developmental rates, the use of treated cells as nuclear donors did not affect the pre- and post-implantation development. In the second experiment, we used the BOHB in a series of experiments to test whether this molecule acts as a histone deacetylase inhibitor in bovines. We observed that treatment of fibroblasts with BOHB increased the global levels of H3K9ac. Also, treatment alters the expression of important genes such as glucose transporters and a key enzyme regulating lipid synthesis. Additionally, we demonstrated that this metabolite affect at least one epigenetic mark in cloned zygotes, that lasts until the blastocyst stage. However, zygote treatment with this endogenous metabolite did not increase the pre-implantation developmental rates, albeit increased the expression of a transcription factor that protects cells against oxidative stress, the FOXO3a. Treatment of parthenogenetic embryos with BOHB did not affect the embryo development, neither ATP production, suggesting that BOHB is not toxic as previously believed. Concluding, the results presented here shows that the HDAC inhibition through a pharmacological compound or an endogenous metabolite did not increase the efficiency of bovine SCNT. However, here we showed that the ketone body BOHB might be a nexus between the extracellular environment and the cellular metabolism. Also, it can used as a in vitro model to interrogate questions about does metabolic disturbances such as ketosis in cattle affects the epigenome and cellular metabolism in bovines

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