Centromere domain organization and histone modifications

Centromere function requires the proper coordination of several subfunctions, such as kinetochore assembly, sister chromatid cohesion, binding of kinetochore microtubules, orientation of sister kinetochores to opposite spindle poles, and their movement towards the spindle poles. Centromere structure appears to be organized in different, separable domains in order to accomplish these functions. Despite the conserved nature of centromere functions, the molecular genetic definition of the DNA sequences that form a centromere in the yeasts Saccharomyces cerevisiae and Schizosaccharomyces pombe, in the fruit fly Drosophila melanogaster, and in humans has revealed little conservation at the level of centromere DNA sequences. Also at the protein level few centromere proteins are conserved in all of these four organisms and many are unique to the different organisms. The recent analysis of the centromere structure in the yeast S. pombe by electron microscopy and detailed immunofluorescence microscopy of Drosophila centromeres have brought to light striking similarities at the overall structural level between these centromeres and the human centromere. The structural organization of the centromere is generally multilayered with a heterochromatin domain and a central core/inner plate region, which harbors the outer plate structures of the kinetochore. It is becoming increasingly clear that the key factors for assembly and function of the centromere structure are the specialized histones and modified histones which are present in the centromeric heterochromatin and in the chromatin of the central core. Thus, despite the differences in the DNA sequences and the proteins that define a centromere, there is an overall structural similarity between centromeres in evolutionarily diverse eukaryotes.

The eukaryotic Pso2/Snm1/Artemis proteins and their function as genomic and cellular caretakers

DNA double-strand breaks (DSBs) represent a major threat to the genomic stability of eukaryotic cells. DNA repair mechanisms such as non-homologous end joining (NHEJ) are responsible for the maintenance of eukaryotic genomes. Dysfunction of one or more of the many protein complexes that function in NHEJ can lead to sensitivity to DNA damaging agents, apoptosis, genomic instability, and severe combined immunodeficiency. One protein, Pso2p, was shown to participate in the repair of DSBs induced by DNA inter-strand cross-linking (ICL) agents such as cisplatin, nitrogen mustard or photo-activated bi-functional psoralens. The molecular function of Pso2p in DNA repair is unknown, but yeast and mammalian cell line mutants for PSO2 show the same cellular responses as strains with defects in NHEJ, e.g., sensitivity to ICLs and apoptosis. The Pso2p human homologue Artemis participates in V(D)J recombination. Mutations in Artemis induce a variety of immunological deficiencies, a predisposition to lymphomas, and an increase in chromosomal aberrations. In order to better understand the role of Pso2p in the repair of DSBs generated as repair intermediates of ICLs, an in silico approach was used to characterize the catalytic domain of Pso2p, which led to identification of novel Pso2p homologues in other organisms. Moreover, we found the catalytic core of Pso2p fused to different domains. In plants, a specific ATP-dependent DNA ligase I contains the catalytic core of Pso2p, constituting a new DNA ligase family, which was named LIG6. The possible functions of Pso2p/Artemis/Lig6p in NHEJ and V(D)J recombination and in other cellular metabolic reactions are discussed.

Genotoxic, neurotoxic and neuroprotective activities of apomorphine and its oxidized derivative 8-oxo-apomorphine

Apomorphine is a dopamine receptor agonist proposed to be a neuroprotective agent in the treatment of patients with Parkinson's disease. Both in vivo and in vitro studies have shown that apomorphine displays both antioxidant and pro-oxidant actions, and might have either neuroprotective or neurotoxic effects on the central nervous system. Some of the neurotoxic effects of apomorphine are mediated by its oxidation derivatives. In the present review, we discuss recent studies from our laboratory in which the molecular, cellular and neurobehavioral effects of apomorphine and its oxidized derivative, 8-oxo-apomorphine-semiquinone (8-OASQ), were evaluated in different experimental models, i.e., in vitro genotoxicity in Salmonella/microsome assay and WP2 Mutoxitest, sensitivity assay in Saccharomyces cerevisiae, neurobehavioral procedures (inhibition avoidance task, open field behavior, and habituation) in rats, stereotyped behavior in mice, and Comet assay and oxidative stress analyses in mouse brain. Our results show that apomorphine and 8-OASQ induce differential mutagenic, neurochemical and neurobehavioral effects. 8-OASQ displays cytotoxic effects and oxidative and frameshift mutagenic activities, while apomorphine shows antimutagenic and antioxidant effects in vitro. 8-OASQ induces a significant increase of DNA damage in mouse brain tissue. Both apomorphine and 8-OASQ impair memory for aversive training in rats, although the two drugs showed a different dose-response pattern. 8-OASQ fails to induce stereotyped behaviors in mice. The implications of these findings are discussed in the light of evidence from studies by other groups. We propose that the neuroprotective and neurotoxic effects of dopamine agonists might be mediated, in part, by their oxidized metabolites.

How does yeast respond to pressure?

The brewing and baking yeast Saccharomyces cerevisiae has been used as a model for stress response studies of eukaryotic cells. In this review we focus on the effect of high hydrostatic pressure (HHP) on S. cerevisiae. HHP exerts a broad effect on yeast cells characteristic of common stresses, mainly associated with protein alteration and lipid bilayer phase transition. Like most stresses, pressure induces cell cycle arrest. Below 50 MPa (500 atm) yeast cell morphology is unaffected whereas above 220 MPa wild-type cells are killed. S. cerevisiae cells can acquire barotolerance if they are pretreated with a sublethal stress due to temperature, ethanol, hydrogen peroxide, or pressure. Nevertheless, pressure only leads to protection against severe stress if, after pressure pretreatment, the cells are also re-incubated at room pressure. We attribute this effect to the inhibition of the protein synthesis apparatus under HHP. The global genome expression analysis of S. cerevisiae cells submitted to HHP revealed a stress response profile. The majority of the up-regulated genes are involved in stress defense and carbohydrate metabolism while most repressed genes belong to the cell cycle progression and protein synthesis categories. However, the signaling pathway involved in the pressure response is still to be elucidated. Nitric oxide, a signaling molecule involved in the regulation of a large number of cellular functions, confers baroprotection. Furthermore, S. cerevisiae cells in the early exponential phase submitted to 50-MPa pressure show induction of the expression level of the nitric oxide synthase inducible isoform. As pressure becomes an important biotechnological tool, studies concerning this kind of stress in microorganisms are imperative.

The biological effects of high-pressure gas on the yeast transcriptome

The aim of the present study was to examine the feasibility of DNA microarray technology in an attempt to construct an evaluation system for determining gas toxicity using high-pressure conditions, as it is well known that pressure increases the concentration of a gas. As a first step, we used yeast (Saccharomyces cerevisiae) as the indicator organism and analyzed the mRNA expression profiles after exposure of yeast cells to nitrogen gas. Nitrogen gas was selected as a negative control since this gas has low toxicity. Yeast DNA microarray analysis revealed induction of genes whose products were localized to the membranes, and of genes that are involved in or contribute to energy production. Furthermore, we found that nitrogen gas significantly affected the transport system in the cells. Interestingly, nitrogen gas also resulted in induction of cold-shock responsive genes. These results suggest the possibility of applying yeast DNA microarray to gas bioassays up to 40 MPa. We therefore think that "bioassays" are ideal for use in environmental control and protection studies.

Identification of the divergent calmodulin binding motif in yeast Ssb1/Hsp75 protein and in other HSP70 family members

Yeast soluble proteins were fractionated by calmodulin-agarose affinity chromatography and the Ca2+/calmodulin-binding proteins were analyzed by SDS-PAGE. One prominent protein of 66 kDa was excised from the gel, digested with trypsin and the masses of the resultant fragments were determined by MALDI/MS. Twenty-one of 38 monoisotopic peptide masses obtained after tryptic digestion were matched to the heat shock protein Ssb1/Hsp75, covering 37% of its sequence. Computational analysis of the primary structure of Ssb1/Hsp75 identified a unique potential amphipathic alpha-helix in its N-terminal ATPase domain with features of target regions for Ca2+/calmodulin binding. This region, which shares 89% similarity to the experimentally determined calmodulin-binding domain from mouse, Hsc70, is conserved in near half of the 113 members of the HSP70 family investigated, from yeast to plant and animals. Based on the sequence of this region, phylogenetic analysis grouped the HSP70s in three distinct branches. Two of them comprise the non-calmodulin binding Hsp70s BIP/GR78, a subfamily of eukaryotic HSP70 localized in the endoplasmic reticulum, and DnaK, a subfamily of prokaryotic HSP70. A third heterogeneous group is formed by eukaryotic cytosolic HSP70s containing the new calmodulin-binding motif and other cytosolic HSP70s whose sequences do not conform to those conserved motif, indicating that not all eukaryotic cytosolic Hsp70s are target for calmodulin regulation. Furthermore, the calmodulin-binding domain found in eukaryotic HSP70s is also the target for binding of Bag-1 - an enhancer of ADP/ATP exchange activity of Hsp70s. A model in which calmodulin displaces Bag-1 and modulates Ssb1/Hsp75 chaperone activity is discussed.

Probing the SERCA1a sarcoplasmic reticulum Ca2+-ATPase phosphorylation-site mutant D351E with inorganic phosphate

The expression of sarcoplasmic reticulum SERCA1a Ca2+-ATPase wild-type and D351E mutants was optimized in yeast under the control of a galactose promoter. Fully active wild-type enzyme was recovered in yeast microsomal membrane fractions in sufficient amounts to permit a rapid and practical assay of ATP hydrolysis and phosphoenzyme formation from ATP or Pi. Mutant and wild-type Ca2+-ATPase were assayed for phosphorylation by Pi under conditions that are known to facilitate this reaction in the wild-type enzyme, including pH 6.0 or 7.0 at 25ºC in the presence of dimethylsulfoxide. Although glutamyl (E) and aspartyl (D) residue side chains differ by only one methylene group, no phosphoenzyme could be detected in the D351E mutant, even upon the addition of 40% dimethylsulfoxide and 1 mM 32Pi in the presence of 10 mM EGTA and 5 mM MgCl2. These results show that in the D351E mutant, increasing hydrophobicity of the site with inorganic solvent was not a sufficient factor for the required abstraction of water in the reaction of E351 with Pi to form a glutamylphosphate (P-E351) phosphoenzyme moiety. Mutation D351E may disrupt the proposed alignment of the reactive water molecule with the aspartylphosphate (P-D351) moiety in the phosphorylation site, which may be an essential alignment both in the forward reaction (hydrolysis of aspartylphosphate) and in the reverse reaction (abstraction of water upon formation of an aspartylphosphate intermediate).

Pharmacology and toxicology of diphenyl diselenide in several biological models

The pharmacology of synthetic organoselenium compounds indicates that they can be used as antioxidants, enzyme inhibitors, neuroprotectors, anti-tumor and anti-infectious agents, and immunomodulators. In this review, we focus on the effects of diphenyl diselenide (DPDS) in various biological model organisms. DPDS possesses antioxidant activity, confirmed in several in vitro and in vivo systems, and thus has a protective effect against hepatic, renal and gastric injuries, in addition to its neuroprotective activity. The activity of the compound on the central nervous system has been studied since DPDS has lipophilic characteristics, increasing adenylyl cyclase activity and inhibiting glutamate and MK-801 binding to rat synaptic membranes. Systemic administration facilitates the formation of long-term object recognition memory in mice and has a protective effect against brain ischemia and on reserpine-induced orofacial dyskinesia in rats. On the other hand, DPDS may be toxic, mainly because of its interaction with thiol groups. In the yeast Saccharomyces cerevisiae, the molecule acts as a pro-oxidant by depleting free glutathione. Administration to mice during cadmium intoxication has the opposite effect, reducing oxidative stress in various tissues. DPDS is a potent inhibitor of d-aminolevulinate dehydratase and chronic exposure to high doses of this compound has central effects on mouse brain, as well as liver and renal toxicity. Genotoxicity of this compound has been assessed in bacteria, haploid and diploid yeast and in a tumor cell line.

Antipyretic and antioxidant activities of 5-trifluoromethyl-4,5-dihydro-1H-pyrazoles in rats

The objective of this study was to determine the effect of eight 5-hydroxy-5-trifluoromethyl-4,5-dihydro-1H-1-carboxyamidepyrazoles (TFDPs) on rat body temperature and baker’s yeast-induced fever. TFDPs or vehicle (5% Tween 80 in 0.9% NaCl, 5 mL/kg) were injected subcutaneously and rectal temperature was measured as a function of time in 28-day-old male Wistar rats (N = 5-12 per group). Antipyretic activity was determined in feverish animals injected with baker’s yeast (Saccharomyces cerevisiae suspension, 0.135 mg/kg, 10 mL/kg, ip). 3-Ethyl- and 3-propyl-TFDP (140 and 200 μmol/kg, respectively, 4 h after yeast injection) attenuated baker’s yeast-induced fever by 61 and 82%, respectively. These two effective antipyretics were selected for subsequent analysis of putative mechanisms of action. We then determined the effects on cyclooxygenase-1 and -2 (COX-1 and COX-2) activities on 1,1-diphenyl-2-picrylhydrazyl (DPPH) oxidation in vitro, on tumor necrosis factor-α (TNF-α) and interleukin-1β (IL-1β) levels and on leukocyte counts in the washes of peritoneal cavities of rats injected with baker’s yeast. While 3-ethyl- and 3-propyl-TFDP did not reduce baker’s yeast-induced increases of IL-1β or TNF-α levels, 3-ethyl-TFDP caused a 42% reduction in peritoneal leukocyte count. 3-Ethyl- and 3-propyl-TFDP did not alter COX-1 or COX-2 activities in vitro, but presented antioxidant activity in the DPPH assay with an IC50 of 39 mM (25-62) and 163 mM (136-196), respectively. The data indicate that mechanisms of action of these two novel antipyretic pyrazole derivatives do not involve the classic inhibition of the COX pathway or pyrogenic cytokine release.

Aminoácidos livres e uréia durante a fermentação de mosto de Chardonnay com diferentes leveduras

A análise de aminoácidos e uréia durante a fermentação da cultivar Chardonnay, fermentada com diferentes leveduras, foram os principais objetivos deste trabalho. Os mostos foram coletados em Santana do Livramento, RS, transportados para a UFSM; lá foram divididos em dois lotes aos quais foram adicionadas diferentes leveduras: Saccharomyces cerevisiae Fermol Bouquet e Saccharomyces cerevisiae D47. O aminoácido encontrado no mosto em maior quantidade foi a prolina (327 mg/L) seguido por treonina, arginina e alanina (239 mg/L). A maioria dos aminoácidos foi consumida pelas leveduras, logo após o início da fermentação. A liberação máxima de uréia no meio coincidiu com o máximo de consumo de arginina, que para a levedura Fermol Bouquet foi com 15ºBrix e para a levedura D47 com 11ºBrix. Confirmando a pouca preferência de prolina pelas leveduras, o teor deste aminoácido permaneceu elevado durante o processo fermentativo. Os aminoácidos, arginina, alanina, treonina, serina, ácido aspártico e isoleucina podem ser considerados as melhores fontes de nitrogênio para as leveduras.

Aminoácidos livres e uréia durante a fermentação do mosto de Cabernet Sauvignon com diferentes leveduras

A análise de aminoácidos e uréia em mosto de Cabernet Sauvignon fermentado com diferentes leveduras, foram os principais objetivos desse trabalho. Cabernet Sauvignon foi utilizada por ser teoricamente uma cultivar com alto teor de prolina e baixo teor de arginina, em comparação com cultivares com alto teor e predominância de arginina. Os mostos foram coletados em Santana do Livramento, RS e transportados para a UFSM; lá foram dividos em dois lotes aos quais foram adicionados diferentes leveduras: Saccharomyces cerevisiae Fermol Bouquet e Saccharomyces cerevisiae 2056. A análise dos aminoácidos foi realizada utilizando um analizador de aminoácidos marca Hitachi L-8500 conforme SANDERS e OUGH (21). Uréia foi determinada de acordo com ALMY e OUGH (1) modificado por PEREIRA e DAUDT (19). O aminoácido encontrado no mosto, em maior quantidade foi a prolina (847mg/l) seguido por arginina (235mg/l) e alanina (87mg/l). A maioria dos aminoácidos (exceção de prolina) foram consumidos pelas leveduras logo após o início da fermentação. A liberação máxima de uréia no meio coincidiu com o consumo máximo de arginina, que na fermentação com a levedura 2056 ocorreu à 19° Brix (2,7mg/l) e com a levedura Fermol Bouquet ocorreu com o mosto a 15° Brix (4,1mg/l). O teor de prolina permaneceu elevado durante todo o processo fermentativo, confirmando a pouca preferência das leveduras por este aminoácido. Os aminoácidos arginina, treonina, serina, aspartato e isoleucina, podem ser considerados melhores fontes de nitrogênio para as leveduras.

COMPORTAMENTO DAS FERMENTAÇÕES ALCOÓLICA E ACÉTICA DE SUCOS DE KIWI (Actinidia deliciosa): COMPOSIÇÃO DOS MOSTOS E MÉTODOS DE FERMENTAÇÃO ACÉTICA

A cultura de kiwi vem se expandindo e a obtenção de vinagre é uma alternativa para o aproveitamento de excedentes de safra e diversificação da produção. Os mostos foram preparados em seis tratamentos: suco de kiwi natural (T1); suco de kiwi e nutrientes (T2); suco de kiwi e sacarose até 18°Brix (T3); suco de kiwi a 18°Brix, e nutrientes (T4); suco de kiwi e sacarose até 22°Brix (T5) e suco de kiwi a 22°Brix, e nutrientes (T6). A fermentação alcoólica ocorreu a 28°C, com inóculo de 10(6)UFC/mL de Saccharomyces cerevisiae. Foram utilizados na fermentação acética apenas os tratamentos 1, 3 e 5, considerando que a adição de nutrientes não influenciou a produção de etanol. Na fermentação acética, foram utilizados gerador vertical (PG) a temperatura ambiente e fermentador submerso (PS) a 25°C, com agitação de 500rpm e fluxo de oxigênio de 0,05vvm, com volume de trabalho de 2 litros. Os rendimentos da fermentação alcoólica variaram entre 38,65 e 47,23%, com eficiências de 75,62 a 92,41% e produtividades entre 0,74 e 2,0g/L.h. Os valores de pH foram maiores ao final da fermentação alcoólica nos mostos com menor concentração de açúcares totais (T1 e T2). Na fermentação acética pelo PG, a composição dos mostos não aumentou a produtividade, por outro lado, pelo PS, os mostos com concentrações de etanol superiores foram mais produtivos. Os vinagres obtidos pelo PS produziram em 12 horas entre 1,00 e 1,78% (p/v) de ácido acético, com rendimentos variando entre 93,24 e 98,34% e produtividades entre 0,83 e 1,73g/L.h. A análise sensorial, através do teste de ordenação, indicou que os vinagres de kiwi obtidos pelo PG foram superiores, com índices de aceitabilidade acima de 70%.

Metodologia para elaboração de fermentado de cajá (Spondias mombin L.)

Os objetivos deste trabalho foram a elaboração de um processo de fermentação a partir do mosto de polpa de cajá, Spondias mombin, para a obtenção de uma bebida alcoólica, bem como a avaliação da aceitação da mesma. As polpas das frutas utilizadas foram quimicamente analisadas (açúcares, acidez, pectina, vitamina C, pectinases, amido e fenólicos). A polpa de cajá foi chaptalizada a 24°Brix, constituindo 20L de mosto. O mosto foi desacidificado, com CaCO3, a pH 3,8, para ser submetido ao tratamento enzimático com UltrazymR AFP-L (Novo DK). Foi utilizado SO2 como agente inibidor do crescimento bacteriano e como antioxidante. O mosto foi clarificado com bentonite. Posteriormente, o mosto foi inoculado com Saccharomyces cerevisiae tipo selvagem na concentração de 10(7) células/mL. A fermentação foi conduzida a 22°C durante 10 dias, com acompanhamento diário do grau Brix e da atividade fermentativa pela liberação de CO2. Ao final da fermentação, o mosto foi armazenado a 10°C por 10 dias e foi feita a primeira trasfega. A segunda trasfega ocorreu 30 dias após a primeira, antes da filtração. Na bebida elaborada foram feitas análises de etanol, glicerol, ácidos orgânicos, álcoois superiores, metanol, ésteres e acetaldeído. Observou-se alta concentração de álcoois superiores, os quais são normalmente responsáveis pela formação do sabor e aroma em bebidas alcóolicas. A aceitação da bebida foi avaliada por 45 provadores não treinados, utilizando-se escala hedônica de 9 pontos. Os dados mostraram que o fermentado de cajá foi bem aceito, podendo ser uma nova fonte de investimento para indústrias ou pequenos produtores.

Melhoria do rendimento e do processo de obtenção da bebida alcoólica de pupunha (Bactris gasipaes Kunth)

Com frutos de pupunha (Bactris gasipaes Kunth) e fermentação natural, índios na Amazônia produzem uma bebida alcoólica turva, densa, com resíduos de polpa, denominada de "caiçuma". Pesquisas realizadas no Instituto Nacional de Pesquisas da Amazônia mostram que com hidrólise enzimática do amido, fermentação por Saccharomyces cerevisiae e filtração adequada, a limpidez e características desejáveis podem ser obtidas. Este experimento teve por objetivo aumentar o rendimento em bebida e facilitar o processo pelo aumento da proporção água:polpa no mosto e exclusão da hidrólise enzimática do amido, respectivamente. A composição química da polpa dos frutos in natura e cozidos foi determinada, e com a polpa cozida e autoclavada foi preparado o mosto completando-se a quantidade de substrato com a adição de xarope de sacarose. Após a inoculação com Saccharomyces cerevisiae a fermentação foi monitorada diariamente por sete dias através de análises químicas. A bebida foi caracterizada quanto à composição química, edulcorada e analisada sensorialmente. A cocção e autoclavagem ocasionaram hidrólise parcial do amido presente na polpa. A evolução da fermentação foi mostrada pelo consumo de açúcares e produção de ácidos e álcool. O rendimento em bebida (± 60%), graduação alcoólica de 12,1% (v/v), atraente coloração alaranjada clara, limpidez, sabor e aroma agradáveis e boa aceitabilidade (81,90%), mostraram a viabilidade técnica do processo na utilização da pupunha para produção de bebida. O aumento da proporção água:polpa no mosto contribuiu para o rendimento. A exclusão da hidrólise enzimática e o aumento do rendimento em bebida não interferiram na graduação alcoólica, coloração, sabor, aroma e aceitabilidade da bebida alcoólica fermentada de pupunha.

Avaliação da produção dos compostos majoritários da fermentação de mosto de uva por leveduras isoladas da região da "Serra Gaúcha" (RS)

O objetivo deste trabalho foi estudar o comportamento do crescimento, bem como a produção de compostos voláteis durante a fermentação de mosto de uva pelas leveduras Kloeckera apiculata e Saccharomyces cerevisiae. As concentrações dos compostos voláteis majoritários da fermentação foram dependentes da temperatura de fermentação. Nas fermentações a 20°C, as concentrações da massa celular seca e dos compostos voláteis foram maiores do que na fermentação a 15°C. A Kloeckera apiculata produziu altas concentrações de acetato de etila (197,0mg/L - 310,0mg/L) e acetato de isoamila (19,3mg/L - 31,3mg/L), ésteres de grande importância sensorial. No entanto, a concentração de etanol obtida foi baixa, cerca de 6,3g/L - 24,0g/L, em comparação à conseguida utilizando Saccharomyces cerevisiae como agente de fermentação (27,3g/L - 34,0g/L).