<p> Cobalt-clusters are versatile reagents in organometallic chemistry. Their ability to protect an alkyne allows one to selectively manipulate a ligand without undergoing a competitive reaction from the alkyne. Cobalt-clusters geometrically modify linear alkynes to 136-145° degrees, thereby allowing for some non-traditional alkynyl chemistry to occur. In particular, the focus of this dissertation lies upon the chemistry of cobalt-complexed propargyl alkynols, the ability of cobalt to stabilize neighbouring cations generated from these alcohols, and the chemistry that can be accomplished by altering the steric and electronic effects. We have chosen to study the possibility of inducing migration of various substituents from one terminus of the cobalt-complexed alkyne to the alcoholic site of the propargyl group via protonation of the desired complex. While examining various silanes, and altering the propargyl alcohol itself, we have considered both steric and electronic effects, thereby determining the idealized conditions for such transfers to occur. Furthermore, in our attempts to successfully apply these migrations to several systems, we have acquired a diverse synthetic knowledge of propargyl cobalt-clusters and their intricate reactivity.</p> <p> An examination of the potential for allyl migrations in norbornyl derivatives revealed several fascinating transformations. Upon protonation with HBF4, [(2-endo-allyldimethylsilyl)ethynylborneol]Co2(CO)6, 63, suffers elimination of water or propene, to yield [(2-allyldimethylsilyl)ethynylborn-2-ene]Co2(CO)6, 68, [(2-endo-dimethylfluorosilyl)ethynylborneol]Co2(CO)6, 69, respectively, and, surprisingly, the tricobalt complex (2-norbornylidene)CHCCo3(CO)9, 70, In contrast, protonation of the terminal alkyne (2-endo-ethynylborneol)Co2(CO)6, 76, an anticipated precursor to 70, led instead to (2-ethynyl-2-bornene)Co2(CO)6, 78, and the ring-opened species (2-ethynyl-4-isopropyl-1-methylcyclohexa-1,3-diene)Co2(CO)6, 79. However, conversion of 76 to 70 was achievable upon prolonged heating at reflux in acetone, thereby also affording the corresponding alcohol, [2-(2-hydroxybornyl)]CH2CCo3(CO)9, 77. A mechanistic rationale is offered for the formation of RCH2CCo3(CO)9 clusters upon protonation of alkyne complexes of the type (RC≡CH)Co2(CO)6.</p> <p> Our interest in acid-promoted rearrangements in cobalt-clusters led us to novel propargyl radical chemistry induced by using particular solvents. The protonation of (1,1-diphenyl-2-propyn-1-ol)Co2(CO)6, 108, with HBF4 in dichloromethane generates the expected metal-stabilized propargyl cation, and also rearranges to give the tricobalt cluster Ph2C=CH-CCo3(CO)9, 33. In contrast, use of THF as solvent affords the radical (Co2(CO)6)[HC≡C-CPh2·], which dimerizes at the methyne position; subsequent cyclization and carbonylation yields 2,5-bis-(diphenylmethylene)cyclopent-3-en-1-one, 112.</p> <p> Furthermore, use of a fluorenyl substituent, instead of the diphenyl analogue, has uncovered a route to transition-metal peroxides of general synthetic potential. Treatment of benzyl- or vinyl-dimethylsilylethynylfluoren-9-ol[Co2(CO)6], 53 and 54, respectively, with HBF4 in diethyl ether or THF has afforded the very first known bimetallic transition metal peroxides, 124 and 125.</p> <p> Finally, the ability of cobalt-clusters to alter the geometry of cycloalkanes has been investigated. Treatment of 1-[axial]-(trimethylsilylethynyl)cyclohexan-1-ol, 129, with dicobalt octacarbonyl results in a conformational ring flip such that the bulky dicobalt-alkyne cluster moiety now occupies the favored equatorial site. However, when a 4-tert-butyl substituent is present, the coordinated alkynyl group retains its original axial or equatorial position.</p> <p> Complexation of trans-[diaxial]-1,4-bis(triphenylsilylethynyl)cyclohexan-1,4-diol, 142, brings about a chair-to-chair conformational inversion such that both cluster fragments now occupy equatorial sites. In contrast, cis-1,4 bis(triphenylsilylethynyl)cyclohexan-1,4-diol, 143, reacts with Co2(CO)8 to yield the twist-boat conformer, 145, in which the two axial hydroxy substituents exhibit intra-molecular hydrogen bonding. Likewise, the corresponding reaction of cis-1 ,4bis(trimethylsilylethynyl)cyclohexan-1,4-diol, 147, with Co2(CO)8 leads to a twist-boat, 149, but, in this case, the molecules are linked through intermolecular hydrogen bonds. The importance of X-ray crystallography in the unambiguous determination of molecular conformations has been emphasized.</p> / Thesis / Doctor of Philosophy (PhD)

L’élimination programmée d’ADN spécifique de la lignée germinale pour former un nouveau noyau somatique a été décrite chez les eucaryotes. Ces réarrangements sont initiés par l’introduction de cassures double brin (CDB) de l’ADN et la préservation de l’intégrité du génome requiert une réparation efficace. Chez Paramecium tetraurelia, le génome est largement réarrangé pendant le développement du nouveau noyau somatique, après l’introduction de milliers de cassures double brin programmées par la transposase domestiquée PiggyMac (Pgm)Ces réarrangements consistent en l’excision précise de dizaines de milliers de séquences uniques et non codantes (IES) qui interrompent 47% des gènes dans la lignée germinale ; et l’élimination hétérogène de séquences répétées qui mène à des délétions internes de taille variable ou à la fragmentation des chromosomes avec addition de télomères aux extrémités.L’implication de la voie du Non Homologous End Joining (NHEJ) dans l’excision précise des IES a été prouvée. Dans des cellules déplétées de Ligase IV ou XRCC4, les cassures aux bornes des IES sont introduites normalement mais il n’y a pas de jonctions d’excision formées et les extrémités cassées s’accumulent sans être dégradées. Mais la voie de réparation impliquée dans les réarrangements imprécis est encore inconnue. L’hypothèse d’une réparation par la voie NHEJ alternative (alt-NHEJ), indépendante de Ku et impliquant la résection des extrémités et l’utilisation de microhomologie, a été émise. C’est pourquoi pendant ma thèse je me suis intéressé à ma thèse au rôle des protéines Ku.Deux gènes KU70 et trois gènes KU80 ont été identifiés dans le génome de la paramécie. KU70a et KU80c sont spécifiquement induits pendant les réarrangements programmés du génome et les protéines localisent dans les noyaux somatiques en développement. Des expériences d’extinction de ces gènes par ARN interférence ont prouvé que ces gènes étaient indispensables. Au niveau moléculaire, l’ADN non réarrangé est amplifié dans les cellules déplétées de Ku. De plus, les cassures double brin programmées ne sont pas introduites aux bornes des IES.Mes résultats suggèrent que Ku fait partie d’un complexe de pré-excision, avec la transposase domestiquée Pgm, et est nécessaire pour l’introduction des cassures double brin programmées pendant les réarrangements programmés du génome. / Programmed elimination of germline specific DNA has been described in several eukaryotic organisms. These rearrangements are initiated through introduction of DNA double strand breaks (DSB). To ensure genome integrity, efficient repair is needed. In Paramecium tetraurelia, the genome is widely rearranged during development of a new somatic nucleus after introduction of tens of thousands of DSBs by the domesticated transposase PiggyMac (Pgm)These rearrangements consist in: the precise excision of thousands of unique and non coding sequences called IESs that interrupt 47% of genes in the germline; and the heterogeneous elimination of repeated sequences. It leads to internal deletions of variable sizes or to chromosome fragmentation with telomere addition at DNA ends.Implication of the Non Homologous End Joining Pathway (NHEJ) in precise IES excision has been proved. In cells depleted for Ligase IV or XRCC4, DSBs at IES boundaries are introduced normally but broken DNA ends accumulate without being repaired nor degraded. The repair pathway implicated in heterogeneous rearrangements is still unknown. An hypothesis would be that heterogeneous rearrangements involve a Ku independent alternative NHEJ (alt-NHEJ) pathway characterized by end resection and use of microhomologies. During my thesis I studied the role of Ku proteins in programmed genome rearrangements.Two KU70 genes and three KU80 genes has been identified in the Paramecium genome. KU70a and KU80c are specifically induced during programmed genome rearrangements. Encoded proteins localize in developing somatic nuclei. Gene extinction by RNA interference experiments proved that these genes are necessary for programmed genome rearrangements. At molecular level, non rearranged DNA is amplified in cells depleted for Ku. And more surprisingly, no programmed DSBs are introduced at IES boundaries in these cells.My results indicate that Ku is a part of a pre excision complex with the domesticated transposase Pgm and necessary for the introduction of programmed DSB during programmed genome rearrangements.

Thesis (PhD (Botany and Zoology))--University of Stellenbosch, 2008. / The Bathyergidae are subterranean rodents endemic to Africa south of the Sahara. They are characterised by divergent diploid numbers that range from 2n=40 in Fukomys mechowi to 2n=78 in F. damarensis. In spite of this variation there is limited understanding of the events that shaped the extant karyotypes and in an attempt to address this, and to shed light on the mode and tempo of chromosomal evolution in the African mole-rats, a detailed analysis of both the autosomal and sex chromosome components of the genome was undertaken. In addition to G- and Cbanding, Heterocephalus glaber (2n=60) flow-sorted painting probes were used to conduct cross-species chromosome painting among bathyergids. This allowed the detection of a balanced sex chromosome-autosome translocation in F. mechowi that involved a complex series of rearrangements requiring fractionation of four H. glaber autosomes and the subsequent translocation of segments to sex chromosomes and to the autosomal partners. The fixation of this rare rearrangement has probably been favoured by the presence of an intercalary heterochromatic block (IHB) that was detected at the boundary with the translocated autosomal segment. Male meiosis in Cryptomys, the Fukomys sister clade, was investigated by immunostaining of the SCP1 and SCP3 proteins involved in the formation of the synaptonemal complex. This allowed confirmation of a Y-autosome translocation that is shared by C. hottentotus subspecies. We discuss reduced recombination between Y and X2 that seems to be heterochromatin dependent in the C hottentotus lineage, and the implications this holds for the evolution of a meiotic sex chromosome chain such as has been observed in platypus. By extending cross-species chromosome painting to Bathyergus janetta, F. damarensis, F. darlingi and Heliophobius argenteocinereus, homologous chromosomal regions across a total of 11 species/subspecies and an outgroup were examined using cladistic and bioinformatics approaches. The results show that Bathyergus, Georychus and Cryptomys are karyotypically highly conserved in comparison to Heterocephalus, Heliophobius and Fukomys. Fukomys in particular is characterised by a large number of rearrangements that contrast sharply with the conservative Cryptomys. The occurrence and fixation of rearrangements in these species has probably been facilitated by vicariance in combination with life history traits that are particular to these mammals.

As alterações cromossômicas estruturais associadas a fenótipos clínicos oferecem a oportunidade de identificação de genes cujas mutações possam estar determinando essas patologias, tendo em vista a possibilidade de que esses genes podem ter sido alterados pelas quebras ou ter o número de cópias modificado. Um número cada vez maior de evidências aponta para a participação de certas seqüências do genoma na formação de rearranjos cromossômicos recorrentes e não recorrentes. Neste trabalho, estudamos duas deleções cromossômicas detectadas em indivíduos com retardo mental associado a sinais clínicos. O objetivo foi determinar que mecanismos originaram esses rearranjos e como a perda ou quebra dos segmentos cromossômicos está relacionada com o fenótipo dos portadores. A caracterização das seqüências nos pontos de quebra e junção desses rearranjos é fundamental para a compreensão dos mecanismos de formação das alterações cromossômicas. A delimitação precisa dos segmentos deletados é necessária para a correlação com o quadro clínico. Para isso, este trabalho aliou o estudo cromossômico por hibridação in situ fluorescente (FISH) à análise do DNA. / Structural chromosomal alterations related to clinical phenotypes bring the opportunity to identify gene mutations determining the pathologies, because the causative genes may have been disrupted by the breaks or may have an altered number of copies. The delimitation of the segments involved in the chromosomal rearrangements is necessary for these genotype-phenotype correlations. The characterization of breakpoint and junction sequences in these chromosome alterations enables the identification of mechanisms originating them, and evidence has been produced pointing to the participation of particular genomic sequences in their formation. In this work, we studied two chromosomal deletions in patients with syndromic mental retardation, combining chromosomal analysis by fluorescent in situ hybridization (FISH) to DNA analysis. Our aim was to determine the mechanisms that originated these aberrations and how they were involved with the clinical phenotypes.

Thesis advisor: Amir H. Hoveyda / Chapter 1. Mechanistic Insights and Factors Influencing Polytopal Rearrangements in Stereogenic-at-Ru Carbenes. Herein, the mechanistic elucidation of the stereochemical inversion in stereogenic-at-Ru carbene complexes through olefin metathesis (OM) and non-olefin metathesis (non-OM) based polytopal rearrangements is provided. Our investigations involve the isolation and characterization of previously hypothesized higher-energy (e.g., endo-anti) and lower-energy (e.g., exo-anti) diastereomers, and their interconversion under thermal and/or acid-catalyzed conditions is demonstrated. Furthermore, our computational efforts highlighting the importance of the anionic ligands, due to their critical role in trans influence, dipolar interactions, and e-e repulsions, in polytopal rearrangements are reported. Finally, the positive influence of H-bonding in OM and non-OM processes is also rationalized. (a) Khan, R. K. M.; Zhugralin, A. R.; Torker, S.; O'Brien, R. V.; Lombardi, P. J. and Hoveyda, A. H. "Synthesis, Isolation, Characterization, and Reactivity of High-Energy Stereogenic-at-Ru Carbenes: Stereochemical Inversion Through Olefin Metathesis and Other Pathways," J. Am. Chem. Soc. 2012, 134, 12438-12441. (b) Torker, S.; Khan, R. K. M. and Hoveyda, A. H. "The Influence of Anionic Ligands on Stereoisomerism of Ru Carbenes and Their Importance to Efficiency and Selectivity of Catalytic Olefin Metathesis Reactions," J. Am. Chem. Soc. 2014, 136, 3439-3455. Chapter 2. Highly Z- and Enantioselective Ring-Opening/Cross-Metathesis of Enol Ethers Through Curtin-Hammett Kinetics. The first instances of Z- and enantioselective Ru-catalyzed olefin metathesis are presented. Ring-opening/cross-metathesis (ROCM) reactions of oxabicyclic alkenes and enol ethers and a phenyl vinyl sulfide are promoted by 0.5-5.0 mol % of enantiomerically pure stereogenic-at-Ru complexes with an aryloxy chelate tethered to the N-heterocyclic carbene. Products are formed efficiently and with exceptional enantioselectivity (up to >98:2 enantiomer ratio). Surprisingly, the enantioselective ROCM reactions proceed with high Z selectivity (up to >98% Z). Moreover, reactions proceed with the opposite sense of enantioselectivity versus aryl olefins, which afford E- isomers exclusively. DFT calculations and deuterium-scrambling experiments, indicating fast interconversion between endo- and exo-Fischer carbene diastereomers, support a Curtin-Hammett situation. On this basis, models accounting for the stereoselectivity levels and trends are provided. Furthermore, the correlation of Fischer carbene character to the observed chemoselectivity in ROCM with enol ethers is also disclosed. Finally, a general proposal for the substrate-controlled Z selectivity in OM is also discussed. (a) Khan, R. K. M.; O'Brien, R. V.; Torker, S.; Li, B. and Hoveyda, A. H. "Z- and Enantioselective Ring-Opening Cross-Metathesis with Enol Ethers Catalyzed by Stereogenic-at-Ru Carbenes: Reactivity, Selectivity, and Curtin-Hammett Kinetics," J. Am. Chem. Soc. 2012, 134, 12774-12779. (b) Torker, S.; Koh, M. J.; Khan, R. K. M. and Hoveyda, A. H. "Origin of Z selectivity in Olefin Metathesis Reactions of Certain Terminal Alkenes Catalyzed by Typically E-Selective Ru Carbenes," manuscript submitted. Chapter 3. A New Class of Highly Efficient Ru Catalysts for Z-Selective Olefin Metathesis. Herein, we outline a general design for Z-selective OM, which led to the development of a new class of stereogenic-at-Ru carbene complexes (Ru4-9). Furthermore, we demonstrate that the newly developed dithiolate complexes Ru4b and Ru5 efficiently promote high activity and selectivity in ROMP reactions of norbornene and cyclooctene. Notably, the catechothiolate Ru4b catalyzes Z-selective ROCM with a broad scope of alkenes involving various functional groups (e.g., alcohols, enol ethers, vinyl sulfides, amides, heterocycles, and conjugated 1,3-dienes). More importantly, we disclose that the catecholate complex Ru4a is kinetically non-selective in OM and readily decomposes in the presence of mildly acidic moieties (e.g., alcohols and CDCl3). Subsequently, Ru9 is developed to efficiently promote highly Z-selective CM of a diol cross-partner with a wide range of alkene substrates. Most remarkably, the aforementioned protocol is employed in two natural product syntheses and the OM-based Z-selective cracking of oleic acid, which is unprecedented with existing Ru-carbenes and Mo/W-alkylidenes. (a) Khan, R. K. M.; Torker, S. and Hoveyda, A. H. "Readily Accessible and Easily Modifiable Ru-Based Catalysts for Efficient and Z-Selective Ring-Opening Metathesis Polymerization and Ring-Opening Cross-Metathesis," J. Am. Chem. Soc. 2013, 135, 10258-10261. (b) Koh, M. J.; Khan, R. K. M.; Torker, S. and Hoveyda, A. H. "Broadly Applicable Z- and Diastereoselective Ring-Opening/Cross-Metathesis Catalyzed By a Dithiolate Ru Complex," Angew. Chem., Int. Ed. 2014, 53, 1968-1972. (c) Khan, R. K. M. ; Torker, S. and Hoveyda, A. H. "Reactivity and Selectivity Differences Between Catecholate and Catechothiolate Ru Complexes. Implications Regarding Design of Stereoselective Olefin Metathesis Catalysts," J. Am. Chem. Soc. 2014, 136, 14337-14340. (d) Koh, M. J.; Khan, R. K. M.; Torker, S.; Yu, M.; Mikus, M. S. and Hoveyda, A. H. "Synthesis of High-Value Alcohols, Aldehydes and Acids by Catalytic Z-Selective Cross-Metathesis" manuscript submitted. / Thesis (PhD) — Boston College, 2014. / Submitted to: Boston College. Graduate School of Arts and Sciences. / Discipline: Chemistry.

O interesse científico em rearranjos gênicos relacionados com a etiogênese e progressão do câncer relaciona-se, principalmente, à descoberta da fusão BCR/ABL na Leucemia Mieloide Crônica, sendo que desde então, houve uma evolução no manejo dessa doença, instigando uma série de estudos correlatos em outras neoplasias. Essas pesquisas culminaram no encontro do primeiro rearranjo gênico em tumores sólidos, o gene de fusão TMPRSS2/ERG, envolvendo a região promotora do gene da serina protease, o TMPRSS2, e o gene da família de fatores de transcrição ETS, o ERG. Ele é específico de adenocarcinoma da próstata, o que o torna forte candidato a biomarcador e já demonstra exercer papel de destaque no manejo clínico do câncer de próstata (CaP), tal qual o exercido pela fusão BCR/ABL. Sua frequência têm se mostrado associada a diversos fatores, sobretudo à etnia de origem. Indivíduos portadores de CaP oriundos de diversos países já foram estudados quanto à frequência dessa fusão e o resultado é bastante diversificado. No Brasil, entretanto, ainda não há dados a respeito desse rearranjo, e este trabalho visa contribuir para a identificação da frequência da mesma e sua contribuição para o diagnóstico e o tratamento do CaP no país. Para tal, utilizamos mRNA de 20 indivíduos com CaP provenientes do serviço de atendimento do HCFMRP/USP, e por meio da técnica de RT-PCR, obtivemos o cDNA dos mesmos que foram investigados quanto à presença da fusão TMPRSS2/ERG, e as amostras positivas sequenciadas para determinação do tipo de isoforma envolvida. Identificamos que 35% das amostras continham o rearranjo e que todas correspondiam à isoforma do tipo III, cuja literatura a relaciona com um fenótipo agressivo do CaP, porém não metástico, e é também a mais comumente identificada. Ao confrontarmos essa evidência com os dados clínicos e histopatológicos, constatamos que havia correlação entre eles, sugerindo assim, como em outros trabalhos, o potencial desse rearranjo como marcador de agressividade do CaP. No entanto, não verificamos relação entre a presença da fusão e dados de progressão da doença. Em vista desses resultados, destacamos a necessidade da promoção de outros trabalhos de mesmo caráter, abrangendo outras regiões, a fim de se delinear um perfil mais representativo desse rearranjo no Brasil, uma vez que seu potencial como biomarcador diagnóstico e clínico é enorme e pode influenciar sobremaneira no manejo do CaP. / Scientific interest in gene rearrangements associated with cancer progression and etiogenesis relates mainly to the discovery of BCR/ABL fusion in chronic myelogenous leukemia, and since then there has been an evolution in the management of this disease, prompting a series of related studies in other malignancies. These researches resulted in the meeting of the first gene rearrangement in solid tumors, the fusion gene TMPRSS2/ERG involving the promoter region of the gene of serine protease, TMPRSS2, and the gene family of transcription factors ETS, the ERG. It is specific for adenocarcinoma of the prostate, which makes it a strong candidate biomarker and shows already exert a prominent role in the clinical management of prostate cancer (PCa), as is exercised by the BCR/ABL. Its frequency has been shown to be associated with several factors, especially the ethnic origin. Individuals with CaP from different countries have been studied in the frequency of this merger and the result is quite diverse. In Brazil, however, there is no data about this rearrangement, and this paper aims to contribute to the identification of the same frequency and its contribution to the diagnosis and treatment of PCa in the country. Therefore, we used mRNA from 20 individuals with CaP from the answering service HCFMRP/USP, and by RT-PCR, cDNA obtained from the same people who were investigated for the presence of fusion TMPRSS2/ERG, and positive samples sequenced to determine the type of isoform involved. We found that 35% of the samples contained the rearrangement and that all corresponded to the type III isoform, whose literature relates to an aggressive phenotype of PCa, but not metastatic, and is also the most commonly identified. When we compared this evidence with clinical and histopathological data, we found that there was a correlation between them, suggesting, as in other studies, the potential of this rearrangement as a agressivity marker of PCa. However, no significant association between the presence of data fusion and disease progression. In view of these results, we highlight the need to promote other works of the same character, covering other regions, in order to delineate a more representative profile of this rearrangement in Brazil, since its potential as a biomarker and clinical diagnosis is huge and can influence greatly in the management of PCa.

Further investigations intending illucidate the mechanism of a newly discovered redox-alkylation reaction of azo dyes are presented. Preliminary results indicate that this reaction most probably proceeds via initial N-alkylation of the anion derived from an alpha-ketohydrazone. An investigation is continued to study the synthesis of macrocycle-carbohydrate-dye hybrids. The development of a modular approach to macrocycle assembly has enabled the synthesis of a library of pyridine-based macrocycles possessing multiple donor sites. A central dye scaffold, prepared from the SNAr reaction between halo-substituted azo dye and a disubstituted phenol, was decorated with a representative carbohydrate or macrocycle using Sharpless click chemistry. Also an "S3N-ligand azo-dye" conjugate has been synthesised with a view to the development of a sensor for heavy metal ions. Complexation of this system with Ag(I), Hg(II) and Cu(II) salts has been investigated. Complexation of the dye to metals results in a bathochromic shift in the absorption maximum of the azo dye, an effect which is most pronounced for Cu(II).The Kobayashi fragmentation has transformed the area of benzyne chemistry as it enables its generation from readily available precursors under mild reaction conditions. The controlled generation of benzyne in this manner has been utilised by many groups, allowing readily access to a variety of functionalised aromatic and heteroaromatic from simple precursors. During the course of a synthetic project, which was to utilise the Kobayashi fragmentation in a key intramolecular Diels-Alder reaction, we noticed that alternate modes of fragmentation/rearrangement accompanied the desired elimination reaction leading to benzyne generation. In particular, competing Fries or Smiles rearrangements became the major routes of fragmentation in appropriately functionalised substrates. The results of an investigation into the factors affecting the course of the Kobayashi fragmentation, together with the development of a novel bi-aryl synthesis are presented in this thesis.

Made available in DSpace on 2017-07-10T14:38:24Z (GMT). No. of bitstreams: 1 Dissertacao Simone Cristina Girardi.pdf: 4377774 bytes, checksum: 366158b7c208a2a4a26392aebcbc096b (MD5) Previous issue date: 2015-02-27 / Coordenação de Aperfeiçoamento de Pessoal de Nível Superior / Pimelodidae is a family of fishes of South America, and although several taxonomic and molecular studies have been conducted, the phylogenetic relationships among the genera are not still fully understood. In order to provide data to assist in the understanding of the relationships within this family, cytogenetic studies were performed in two species of Iheringichthys and seven species of Pimelodus from three river systems. The specimens were collected in the Piquiri River, Upper Paraná River basin; in the Iguaçu River, downstream to the Iguaçu Falls in the Middle Paraná River basin; in the Iguaçu River, Lower Iguaçu River basin and in the Ijuí River, Upper Uruguay River basin. The analysis showed the presence of 2n=56 chromosomes for all species, corroborating the hypothesis of this basal diploid number for the family. The AgNORs, confirmed by 18S rDNA-FISH, were localized in the terminal position on long arm of a chromosome pair for all analyzed species, which has been reported for all species of Pimelodidae and may indicate a basal trait for the family. The heterochromatin distribution pattern found herein is similar to those described for other Pimelodidae, and allowed us to differentiate most of the species, becoming an important marker. The location of 5S rDNA sequences in Iheringichthys species allowed their differentiation, and can be used as a taxonomic marker. In Pimelodus species, it was verified a variation in the number and position of 5S rDNA sites. In P. britskii and P. maculates, sites of 5S rDNA and 18S were found in synteny, which may indicate a derived condition for these species, considering that they are the only for pimelodids species till now studied that have this feature. The results of this study provided data that contribute to the knowledge of the evolutionary history of the species for Pimelodidae; establishing phylogenetic relationships and assisting in the identification of these species. / Pimelodidae é uma família de peixes da região Neotropical, e embora vários estudos taxonômicos e moleculares tenham sido realizados, as relações filogenéticas entre seus gêneros ainda não são totalmente compreendidas. Com o intuito de fornecer dados para auxiliar no entendimento das relações dentro desta família, foram realizados estudos citogenéticos em duas espécies de Iheringichthys e em sete espécies de Pimelodus de três sistemas hidrográficos. Os exemplares foram coletados no rio Piquiri, Bacia do Alto rio Paraná; no rio Iguaçu, jusante às Cataratas do Iguaçu na Bacia do Médio rio Paraná; no rio Iguaçu, Bacia do Baixo rio Iguaçu e no rio Ijuí, Bacia do Alto rio Uruguai. As análises mostraram a presença de 2n=56 cromossomos em todas as espécies, reforçando a hipótese de número diplóide basal para a família. As AgRONs, confirmadas pela FISH-DNAr 18S, foram localizadas na região terminal do braço longo de um par de cromossomos em todas as espécies estudadas, sendo que posição terminal desta região é observada em todas as espécies de Pimelodidae e pode indicar um caracter basal da família. O padrão de distribuição de heterocromatina encontrado é semelhante ao observado em outros Pimelodidae, e permitiu diferenciar a maioria das espécies, sendo um importante marcador. A localização das sequências de DNAr 5S nas espécies de Iheringichthys permitiu diferenciá-las, podendo ser utilizado como marcador taxonômico. Em Pimelodus, variação quanto ao número e posição de sítios do DNAr 5S foi observada. Em P. britskii e P. maculatus os sítios de DNAr 5S e 18S foram localizados em sintenia, o que pode indicar uma condição derivada para estas espécies, visto que são as únicas espécies de Pimelodidae que apresentam esta característica até o momento. Os resultados do presente estudo fornecem dados que contribuem para o conhecimento da história evolutiva das espécies de Pimelodidae, permitem estabelecer relações filogenéticas e auxiliam na identificação destas espécies.

A displasia frontonasal (DFN) compreende quadros de aparência facial variável, sendo clinicamente caracterizada por dois ou mais dos seguintes sinais: hipertelorismo ocular com consequente alargamento da base nasal; fissura facial mediana afetando o nariz ou o nariz e lábio superior e, por vezes, o palato; fissura alar (uni ou bilateral); ponta nasal ausente; crânio anterior bífido oculto, e implantação em &#39;V&#39; dos cabelos na fronte. A DFN pode ser vista como um defeito de desenvolvimento que pode ocorrer por si só ou como parte do quadro clínico de várias síndromes. A maioria dos casos de DFN é esporádica, e em raras circunstâncias foram observadas alterações cromossômicas em alguns indivíduos. Até o momento, quatro genes foram relacionados à patogênese molecular de algumas das síndromes com DFN, EFNB1, associado a uma forma de DFN ligada ao X e os genes ALX1, ALX3 e ALX4, todos associados a formas de DFN com herança autossômica recessiva. Embora esteja claro haver heterogeneidade etiológica, na maioria dos casos de DFN a causa não é conhecida, dificultando o adequado aconselhamento genético aos pacientes e seus familiares. Sendo assim, realizamos estudos com diferentes estratégias metodológicas buscando melhor compreender as possíveis causas genéticas da DFN. Ao todo foram analisados 10 pacientes: um caso familial de DFN leve com herança aparentemente autossômica dominante, um caso clinicamente sugestivo de mutação em ALX1, e oito casos de DFN associada a atraso de desenvolvimento com ou sem outras anomalias, dos quais um apresentava um rearranjo de novo aparentemente balanceado entre os cromossomos 4 e 12. Optamos por realizar sequenciamento dos genes previamente relacionados a fenótipos com DFN em todos os casos; para aqueles em que não foram detectadas mutações patogênicas, realizamos análise de variações de número de cópias (CNV) por microarray de polimorfismos de base única e, para o paciente com rearranjo cromossômico, realizamos o mapeamento do ponto de quebra por hibridação in situ fluorescente. Constatamos uma mutação em heterozigose no gene ALX4 co-segregando com o fenótipo do caso familial, sendo esta a primeira descrição de alteração em tal gene causando uma forma de DFN com herança dominante, e sugerimos pela primeira vez um mecanismo de dominância negativa. No caso sugestivo de mutação em ALX1, o diagnóstico foi confirmado através da identificação de uma mutação em homozigose neste gene do paciente; este caso consiste no 3o da literatura mundial e evidencia pela primeira vez que mutações em ALX1 não necessariamente levam a atraso de desenvolvimento ou deficiência intelectual. Os estudos citogenéticos e moleculares dos pontos de quebra do paciente com rearranjo cromossômico sugeriram os genes ARAP2 e CAND1 como possíveis responsáveis por seu quadro clínico, enquanto o estudo de CNVs nos indivíduos com DFN associada a atraso de desenvolvimento apontou os genes DNAJB12 e ENOX2 como possíveis candidatos para explicar o fenótipo de dois dos pacientes. É preciso que novos estudos sejam realizados a fim de melhor compreender o significado de tais achados e a real contribuição de cada gene para o desenvolvimento craniofacial humano e para a etiologia da DFN. Para os casos em que não foram identificadas alterações conclusivas no presente estudo, embora causas ambientais não possam ser descartadas, é preciso que seja investigada também a existência de fatores genéticos e epigenéticos não detectáveis pelas metodologias utilizadas, bem como a hipótese de mosaicismo somático. Nossos resultados, além de corroborarem o envolvimento dos genes ALX1 e ALX4 em fenótipos com DFN, sugerem também novos genes candidatos: ARAP2, CAND1, DNAJB12 e ENOX2 / Frontonasal dysplasia (FND) is a rare group of disorders that comprises cases with a variety of facial appearances, and is clinically characterized by two or more of the following signs: ocular hypertelorism with consequent broadening of the nasal root; median facial cleft affecting the nose and/or upper lip and palate; clefting of the alae nasi (uni or bilateral); lack of formation of the nasal tip; anterior cranium bifidum occultum; and a V-shaped frontal hairline. FND is a developmental defect that can occur alone or as part of several syndromes. Most cases of FND are sporadic, and in rare circumstances chromosomal alterations were observed in affected individuals. To date, four genes have been related to the molecular pathogenesis of some syndromes with DFN, one (EFNB1) is associated with an X-linked form while the 3 others (ALX1, ALX3 and ALX4) are associated with autosomal recessive forms. Although it is clear that FND is etiologic heterogeneous, the causative mechanism is unknown in most cases which makes it hard to give proper genetic counseling to patients and their families. In order to get new insights into the genetic mechanisms leading to FND, we performed studies with different methodologies. Altogether, 10 patients were analyzed: a familial case of a mild form of FND with an apparently autosomal dominant inheritance pattern, a case clinically suggestive of mutation in ALX1, and eight cases of FND associated with developmental delay with or without other anomalies, one of which with an apparently balanced de novo rearrangement between chromosomes 4 and 12. We chose to sequence the genes previously associated with FND phenotypes in all cases; for those in which pathogenic mutations were not detected, we conducted an analysis of copy number variations (CNV) by single nucleotide polymorphisms microarrays; for the patient with chromosomal rearrangement, we also mapped the breakpoints by using fluorescence in situ hybridization. We found a heterozygous mutation in ALX4 co-segregating with the phenotype of the familial case; this is the first description of mutation in this gene causing a form of FND with dominant inheritance pattern, and we suggested for the first time a dominant negative mechanism. In the case suggestive of mutation in ALX1, the diagnosis was confirmed by the identification of a homozygous mutation in this gene; this is the third case of the literature and shows for the first time that mutations in ALX1 are not necessarily related to developmental delay or intellectual disability. Breakpoints cytogenetic and molecular studies done with the patient with chromosomal rearrangement suggested ARAP2 and CAND1 genes as causative candidates for his condition, while the study of CNVs in individuals with FND associated with developmental delay pointed DNAJB12 and ENOX2 genes as possible candidates to explain the phenotypes of two of the patients. Further studies are necessary to better understand the significance of such findings and the actual contribution of each of these genes to human craniofacial development and the etiology of FND. Although environmental causes cannot be ruled out, it should also be investigated the existence of genetic and epigenetic factors as well as the possibility of somatic mosaicism, among the cases negative for the molecular approaches used in our study. Our results corroborate the involvement of ALX1 and ALX4 in FND phenotypes, and suggest new candidate genes: ARAP2, CAND1, DNAJB12 and ENOX2.

L'étude de l'évolution des génomes peut être abordée par différentes stratégies. Généralement, les analyses reposent sur les polymorphismes de séquences. Cependant, il existe des génomes dont le taux de mutation est très faible et dont la principale source de polymorphisme provient de l'arrangement différent de leurs gènes le long des chromosomes. Les événements de réarrangements chromosomiques deviennent alors les seuls marqueurs utilisables pour retracer l'évolution de ces génomes. Nous nous sommes intéressés dans ce travail à l'analyse de l'évolution des génomes mitochondriaux d'espèces végétales au niveau de leur structure. En effet, ces génomes sont caractérisés par un faible taux de mutation et un taux élevé de réarrangements. Cette étude s'est portée à un niveau intraspécifique afin de limiter le nombre de réarrangements à analyser et sur deux espèces : Zea mays, le maïs, et Beta vulgaris, la betterave. Il s'avère, qu'en plus du polymorphisme de structure, ces génomes contiennent un grand nombre d'éléments dupliqués. Or les outils d'analyse d'événements de réarrangements ne permettent pas d'inclure les événements de duplication autrement qu'en distinguant les paralogues des orthologues, ce qu'il est particulièrement difficile à réaliser ici, du fait que les dupliqués sont identiques en séquence. Nous avons ici établi une stratégie basée sur l'hypothèse que les éléments dupliqués proviennent de duplications en tandem, permettant la reconnaissance, le tri et la distinction des éléments dupliqués. Cette méthode nous a conduits à proposer une histoire évolutive basée sur des réarrangements congruente avec les phylogénies de séquences. Les comparaisons entre génomes mitochondriaux de maïs et betteraves nous ont permis de montrer que des mécanismes évolutifs différents sont à l'origine de la diversité génomique observée. Nous avons également observé des différences évolutives entre les génomes à un niveau intraspécifique soulevant le problème d'échantillonnage lorsque l'on veut comparer des génomes à un niveau interspécifique.