A busca de marcadores moleculares para o refinamento diagnóstico, classificação e estabelecimento do prognóstico dos tumores, e individualização terapêutica tem sido foco de várias pesquisas. O presente estudo teve como objetivo investigar, em carcinoma epidermóide de língua e/ou assoalho bucal, a presença de transcritos dos genes homeobox que pudessem se revelar marcadores moleculares de prognóstico e/ou agressividade tumoral. Após análise por microarray utilizando-se amostras de tumores e margens classificados como mais e menos agressivos, os genes homeobox HOXC13, HOXD10, HOXD11, IRX4, PROX1 e ZHX1 foram selecionados e sua hiper-expressão foi parcialmente validada por qRT-PCR. Observou-se aumento da expressão de HOXD10, HOXD11 e IRX4 em tumores com relação às margens correspondentes, bem como nos tumores menos agressivos em relação às suas respectivas margens. Por outro lado, os genes PROX1 e ZHX1 estavam mais expressos nas margens que nos tumores correspondentes. Esses resultados sugerem que a expressão alterada de HOXD10, HOXD11 e IRX4 pode participar no desenvolvimento do carcinoma epidermóide de língua e/ou assoalho bucal, enquanto os genes PROX1 e ZHX1 provavelmente exibem perda de função ou estão silenciados na neoplasia. Houve uma tendência de associação entre a expressão elevada de HOXD11 e presença de infiltrações linfática e perineural, e grau moderado de diferenciação da neoplasia, bem como entre a expressão elevada de HOXD10 e infiltração linfática. O gene IXR4 foi relacionado com um menor tempo de sobrevida global. Não foi possível estabelecer, dentre os genes homeobox validados por qRT-PCR, um gene ou uma combinação deles que pudesse(m) ser utilizado(s) como marcador(es) de agressividade tumoral. / The search for molecular markers to diagnosis improvement, treatment individualization and establishment of oral squamous cell carcinoma prognosis has been the focus of several studies. The present study investigated the presence of specific transcript of homeobox genes in squamous cell carcinoma of the tongue and/or floor of the mouth that might reflect relevant molecular markers of prognosis and/or tumor aggressiveness. After microarray analysis of tumor samples classified as more or less aggressive, and non tumoral margins, HOXC13, HOXD10, HOXD11, IRX4, PROX1 and ZHX1 selected and partially validated by qRT-PCR. Increased expression of HOXD10, HOXD11, IRX4 in tumors in comparison to margins as well as in less aggressive tumors related to their margins was observed. On the other hand, a decreased expression of PROX1 and ZHX1 was observed in margins compared to their respective tumors. These results suggest that the altered expression of HOXD10, HOXD11 and IRX4 may participate in the development of squamous cell carcinoma of the tongue and/or floor of the mouth, while PROX1 and ZHX1 probably present loss of function or are silenced in tumors. A tendency of association between increased expression of HOXD11 and lymphatic and perineural infiltration, as well as moderately differentiated tumors, and increased expression of HOXD10 and lymphatic infiltration was observed. Still, increased expression of IRX4 may apparently influence global survival rate. However, the results of the present study must be confirmed in a greater number of samples, and complemented with the evaluation of HOXD10, HOXD11, IRX4 protein levels. It was not possible to establish, among homeobox genes validated through qRT-PCR, a gene or a combination of genes capable of predicting tumor aggressiveness.

As embryos proceed through development, they must undergo a series of cell fate decisions. At each division, potency is progressively restricted until a terminally differentiated, postmitotic cell is produced. An important part of that cell type determination is repression of alternative fate possibilities. In this thesis, I have explored the mechanisms by which a single transcription factor activates certain cell fates while inhibiting others, using the Caenorhabditis elegans ALM and BDU neurons as a model. ALM neuron identity is regulated by two interacting transcription factors: the POU homeobox gene unc-86 and the LIM homeobox gene mec-3. I investigated fate determination in BDU neurons, the sister cells of ALM. I found that BDU identity is broadly defined by a combination of unc-86 and the Zn finger transcription factor pag-3, while the neuropeptidergic subroutine of BDU is determined by the LIM homeobox gene ceh-14. In addition, I found that reciprocal homeotic transformations occur between ALM and BDU neurons upon loss of either mec-3 or pag-3. In mec-3 mutants, ALM neurons acquire the gene expression profile and morphological characteristics of BDU cells, while in pag-3 mutants, BDU neurons express genes normally found in ALM and change some aspects of their morphology to resemble ALM. While these fate switches appear to be a simple case of cross-repression, the mechanism is in fact more complicated, as pag-3 is expressed not just in BDU but also in ALM. In this thesis, I present evidence that MEC-3 inhibits execution of BDU identity in ALM by physically binding to UNC-86 and sequestering it away from the promoters of BDU genes. This work expands upon the literature examining simultaneous activation of one identity program and repression of alternate programs by introducing a novel mechanism by which a transcription factor competes to direct specific cell fates.

Câncer e desenvolvimento embrionário possuem diversos aspectos em comum, pois ambos exibem alternância entre proliferação e diferenciação celular. A família dos genes homeobox codifica fatores de transcrição fundamentais para o adequado desenvolvimento embrionário, e têm sido descritos em diferentes neoplasias. O PMX1 (Paired Mesoderm Homeobox 1) é um gene homeobox que está expresso durante o desenvolvimento de diversos tecidos mesenquimais, como o sistema cardiovascular e elementos do esqueleto. A relação entre o PMX1 e neoplasias malignas ainda não está bem estabelecida. O objetivo desse trabalho foi verificar a presença dos transcritos do gene PMX1 em carcinomas epidermóides de boca e tecidos não tumorais adjacentes. Foi realizada hibridização in situ com sondas marcadas com digoxigenina em dezesseis amostras de carcinoma epidemóide de boca e dez de tecido não tumoral adjacente. No tecido não tumoral adjacente o sinal de hibridização é mais intenso nas camadas basal e suprabasal, mesmo quando ele pode ser observado em outras camadas. No carcinoma epidermóide de boca, o sinal está disperso por todo o tecido sendo mais intenso em áreas com células isoladas. Nossos resultados mostram a presença dos transcritos do PMX1 em epitélio de boca e em carcinoma epidermóide de boca e sugerem a participação do gene PMX1 na carcinogênese de boca. A sua expressão em neoplasias pouco diferenciadas deve ser melhor analisada / Cancer and development share common features since both processes exhibit shifts between cell proliferation and differentiation. Homeobox gene family encodes transcription factors essentials for appropriate embryonic development and they have been described in different types of neoplastic tissues. PMX1 (Paired Mesoderm Homeobox 1) is homeobox gene that has been related with mesenchyma throughout development such cardiovascular system and skeletal elements, however its relation with tumor development is not well established yet. The purpose of this study was to verify the presence of PMX1 transcripts in oral squamous cell carcinomas and adjacent non-tumoral tissues. In situ hybridization was performed with probes labeled with digoxigenin in sixteen samples of squamous cell carcinoma and ten o adjacent non-tumoral tissues. In the adjacent non-tumoral tissues in situ hybridization signaling detected were more intense in the basal and parabasal layers even when it could be observed in other layers. In the oral squamous cell carcinoma the signaling was spread all over the tissue becoming more intense in areas with isolated carcinoma cells. Our findings show PMX1 transcripts in adjacent non-tumoral tissues and oral squamous cell carcinoma and suggest participation of PMX1 in oral carcinogenesis. Its expression in poorly differentiated carcinomas needs to be analyzed in detail

A busca de marcadores moleculares para o refinamento diagnóstico, classificação e estabelecimento do prognóstico dos tumores, e individualização terapêutica tem sido foco de várias pesquisas. O presente estudo teve como objetivo investigar, em carcinoma epidermóide de língua e/ou assoalho bucal, a presença de transcritos dos genes homeobox que pudessem se revelar marcadores moleculares de prognóstico e/ou agressividade tumoral. Após análise por microarray utilizando-se amostras de tumores e margens classificados como mais e menos agressivos, os genes homeobox HOXC13, HOXD10, HOXD11, IRX4, PROX1 e ZHX1 foram selecionados e sua hiper-expressão foi parcialmente validada por qRT-PCR. Observou-se aumento da expressão de HOXD10, HOXD11 e IRX4 em tumores com relação às margens correspondentes, bem como nos tumores menos agressivos em relação às suas respectivas margens. Por outro lado, os genes PROX1 e ZHX1 estavam mais expressos nas margens que nos tumores correspondentes. Esses resultados sugerem que a expressão alterada de HOXD10, HOXD11 e IRX4 pode participar no desenvolvimento do carcinoma epidermóide de língua e/ou assoalho bucal, enquanto os genes PROX1 e ZHX1 provavelmente exibem perda de função ou estão silenciados na neoplasia. Houve uma tendência de associação entre a expressão elevada de HOXD11 e presença de infiltrações linfática e perineural, e grau moderado de diferenciação da neoplasia, bem como entre a expressão elevada de HOXD10 e infiltração linfática. O gene IXR4 foi relacionado com um menor tempo de sobrevida global. Não foi possível estabelecer, dentre os genes homeobox validados por qRT-PCR, um gene ou uma combinação deles que pudesse(m) ser utilizado(s) como marcador(es) de agressividade tumoral. / The search for molecular markers to diagnosis improvement, treatment individualization and establishment of oral squamous cell carcinoma prognosis has been the focus of several studies. The present study investigated the presence of specific transcript of homeobox genes in squamous cell carcinoma of the tongue and/or floor of the mouth that might reflect relevant molecular markers of prognosis and/or tumor aggressiveness. After microarray analysis of tumor samples classified as more or less aggressive, and non tumoral margins, HOXC13, HOXD10, HOXD11, IRX4, PROX1 and ZHX1 selected and partially validated by qRT-PCR. Increased expression of HOXD10, HOXD11, IRX4 in tumors in comparison to margins as well as in less aggressive tumors related to their margins was observed. On the other hand, a decreased expression of PROX1 and ZHX1 was observed in margins compared to their respective tumors. These results suggest that the altered expression of HOXD10, HOXD11 and IRX4 may participate in the development of squamous cell carcinoma of the tongue and/or floor of the mouth, while PROX1 and ZHX1 probably present loss of function or are silenced in tumors. A tendency of association between increased expression of HOXD11 and lymphatic and perineural infiltration, as well as moderately differentiated tumors, and increased expression of HOXD10 and lymphatic infiltration was observed. Still, increased expression of IRX4 may apparently influence global survival rate. However, the results of the present study must be confirmed in a greater number of samples, and complemented with the evaluation of HOXD10, HOXD11, IRX4 protein levels. It was not possible to establish, among homeobox genes validated through qRT-PCR, a gene or a combination of genes capable of predicting tumor aggressiveness.

Thesis (Ph. D.)--West Virginia University, 2009. / Title from document title page. Document formatted into pages; contains x, 148 p. : ill. (some col.). Includes abstract. Includes bibliographical references (p. 136-148).

Hirschsprung’s disease (HSCR) is the major enteric nervous system anomaly affecting newborns with high incidence in Asians. HSCR is a congenital complex genetic disorder characterized by a lack of enteric ganglia along a variable length of the intestine. The receptor tyrosine kinase gene (RET) is the major HSCR gene and cis-elements in the promoter and intron of RET gene are crucial for RET expression. Abnormal RET expression leading to insufficient RET activity causes defective development of the enteric nervous system and is implicated in the pathogenesis of the Hirschsprung’s disease. The human homeobox B5, HOXB5, has an important role in the development of enteric neural crest cells, and perturbation of HOXB5 signaling causes reduced RET expression and HSCR phenotypes in mice. To investigate the roles of HOXB5 in the regulation of RET expression and in the aetiology of HSCR, I sought to(i) elucidate the underlying mechanisms that HOXB5 mediates RET expression, and (ii) to examine the interactions between HOXB5 and other transcription factors including SOX10 and NKX2-1 that have been implicated in RET expression and HSCR. In this study, I demonstrated that HOXB5 binds to the RET promoter and regulates RET expression. HOXB5 and NKX2-1 forma protein complex and mediate RET expression in a synergistic manner. In contrast, HOXB5 cooperates in an additive manner with SOX10in trans-activation from RET promoter. ChIP assay further revealed that HOXB5 and NKX2-1 interact with the same chromatin region proximate to the transcription start site of RET, suggesting that these two factors may interact with each other and regulate the transcription of RET. In silico analysis, EMSA and ChIP analysis showed that HOXB5 also binds to an enhancer element (MCS+9.7)in the intron 1 of RET gene, and HSCR-associated SNPs have been identified in this enhancer element. To further access the HOXB5 trans-activity onMCS+9.7, RET mini-gene was constructed by ligating the RET promoter to the 5’and MCS+9.7 to the 3’of a luciferase gene. Luciferase assay indicated that MCS+9.7 enhances the HOXB5 trans-activation from the RET promoter. In addition, previously identified HSCR-associated SNPs inintron 1 markedly reduce the HOXB5 trans-activation from the RET mini-gene. Moreover, the result of IP-LC-MS/MS indicated that HOXB5 could form protein-protein complexes with nuclear proteins involved in the transcription initiation of genes with TATA-less promoter. This evidence suggested that HOXB5 may cooperate with other activators or co-factors in the remodeling of chromatin conformation, local histone modification and recruitment of essential transcription factors for RNA Polymerase II based transcription from TATA-less promoter, such as RET. My data indicated that HOXB5 in coordination with other transcription factors mediates RET expression. Therefore, defects in cis-or trans-regulation of RET by HOXB5 could lead to a reduction of RET expression and contribute to the manifestation of the HSCR phenotype. / published_or_final_version / Surgery / Doctoral / Doctor of Philosophy

Understanding the specificity of homeobox genes has been hampered by the lack of verified direct transcriptional targets. The Dlx family of homeobox genes is expressed in the ganglionic eminences of the developing forebrain. Dlx1/Dlx2 double knockout (DKO) mice die at birth. Phenotypic analyses demonstrate abnormal development of the basal telencephalon, including defects in neuronal differentiation in the basal ganglia, reduced expression of GABA in the basal telencephalon, and loss of migration of GABAergic inhibitory interneurons to the neocortex. The mechanisms underlying DLX protein regulation of differentiation and migration of GABAergic interneurons are poorly defined. We have successfully applied chromatin immunoprecipitation to identify potential direct transcriptional targets of DLX homeoproteins from embryonic tissues in vivo. Reporter gene assays demonstrated the transcriptional significance of the binding of DLX proteins to different downstream regulatory elements, which were confirmed in vitro by electrophoretic mobility shift assay and site-directed mutagenesis. The functional significance of DLX mediated transcriptional regulation of these targets was further elaborated through several series of loss-of-function assays including gene expression in Dlx1/2 knockout embryonic forebrain tissues, as well as siRNA or Lentiviral mediated shRNA knockdown experiments with primary forebrain cultures. Quantitative analysis of the regulatory effect of Dlx genes on various forebrain markers of differentiation and migration was performed using in situ hybridization, high-performance liquid chromatography coupled with cell counting. Neuronal migration was assessed by forebrain explants and diI labelling of migratory cells from ganglionic eminence to neocortex. We have demonstrated that DLX1 and DLX2 can transcriptionally activate (Gad1, Gad2) or repress (Nrp2) different downstream targets. In the Dlx1/2 DKO, reduction of GABA expression and failure of GABAergic interneurons to migrate to the neocortex is partly due to loss or aberrant expression of these DLX downstream targets. In the triple Dlx1/2; Nrp2KO, partial restoration of tangential migration of GABAergic interneurons from basal ganglia to the neocortex was successfully established signifying the importance of DLX regulation of Semaphorin-Neuropilin signalling during forebrain development.

Understanding the specificity of homeobox genes has been hampered by the lack of verified direct transcriptional targets. The Dlx family of homeobox genes is expressed in the ganglionic eminences of the developing forebrain. Dlx1/Dlx2 double knockout (DKO) mice die at birth. Phenotypic analyses demonstrate abnormal development of the basal telencephalon, including defects in neuronal differentiation in the basal ganglia, reduced expression of GABA in the basal telencephalon, and loss of migration of GABAergic inhibitory interneurons to the neocortex. The mechanisms underlying DLX protein regulation of differentiation and migration of GABAergic interneurons are poorly defined. We have successfully applied chromatin immunoprecipitation to identify potential direct transcriptional targets of DLX homeoproteins from embryonic tissues in vivo. Reporter gene assays demonstrated the transcriptional significance of the binding of DLX proteins to different downstream regulatory elements, which were confirmed in vitro by electrophoretic mobility shift assay and site-directed mutagenesis. The functional significance of DLX mediated transcriptional regulation of these targets was further elaborated through several series of loss-of-function assays including gene expression in Dlx1/2 knockout embryonic forebrain tissues, as well as siRNA or Lentiviral mediated shRNA knockdown experiments with primary forebrain cultures. Quantitative analysis of the regulatory effect of Dlx genes on various forebrain markers of differentiation and migration was performed using in situ hybridization, high-performance liquid chromatography coupled with cell counting. Neuronal migration was assessed by forebrain explants and diI labelling of migratory cells from ganglionic eminence to neocortex. We have demonstrated that DLX1 and DLX2 can transcriptionally activate (Gad1, Gad2) or repress (Nrp2) different downstream targets. In the Dlx1/2 DKO, reduction of GABA expression and failure of GABAergic interneurons to migrate to the neocortex is partly due to loss or aberrant expression of these DLX downstream targets. In the triple Dlx1/2; Nrp2KO, partial restoration of tangential migration of GABAergic interneurons from basal ganglia to the neocortex was successfully established signifying the importance of DLX regulation of Semaphorin-Neuropilin signalling during forebrain development.

Thesis (M. Phil.)--University of Hong Kong, 2008. / Includes bibliographical references (leaves 133-150) Also available in print.

Thesis (Ph. D.)--West Virginia University, 2005. / Title from document title page. Document formatted into pages; contains viii, 179 p. : ill. (some col.). Includes abstract. Includes bibliographical references (p. 156-179).