Submitted by Cássio da Cruz Nogueira (cassionogueirakk@gmail.com) on 2017-10-18T14:56:14Z No. of bitstreams: 2 license_rdf: 0 bytes, checksum: d41d8cd98f00b204e9800998ecf8427e (MD5) Dissertacao_CaracterizacaoEpidemiologicaGenotipica.pdf: 2006227 bytes, checksum: 29730c9982b04cd3d56cbf0c52947d27 (MD5) / Approved for entry into archive by Irvana Coutinho (irvana@ufpa.br) on 2017-11-08T14:22:55Z (GMT) No. of bitstreams: 2 license_rdf: 0 bytes, checksum: d41d8cd98f00b204e9800998ecf8427e (MD5) Dissertacao_CaracterizacaoEpidemiologicaGenotipica.pdf: 2006227 bytes, checksum: 29730c9982b04cd3d56cbf0c52947d27 (MD5) / Made available in DSpace on 2017-11-08T14:22:56Z (GMT). No. of bitstreams: 2 license_rdf: 0 bytes, checksum: d41d8cd98f00b204e9800998ecf8427e (MD5) Dissertacao_CaracterizacaoEpidemiologicaGenotipica.pdf: 2006227 bytes, checksum: 29730c9982b04cd3d56cbf0c52947d27 (MD5) Previous issue date: 2012 / CAPES - Coordenação de Aperfeiçoamento de Pessoal de Nível Superior / A criptococose é uma infecção fúngica causada por uma levedura encapsulada do gênero Cryptococcus que afeta tanto humanos quanto animais, sendo considerada como uma infecção oportunista normalmente associada à imunodepressão. Trata-se de uma das infecções fúngicas humanas de significativa morbidade e mortalidade tanto em indivíduos imunocomprometidos quanto em imunocompetentes, e manifesta-se principalmente sob a forma de meningoencefalite. O objetivo deste trabalho foi realizar a caracterização epidemiológica, genotípica e fenotípica da criptococose em uma unidade de referência no estado do Pará. A população alvo foi composta pelos pacientes atendidos no Hospital Universitário João de Barros Barreto/UFPA, de janeiro de 2010 a dezembro de 2011 com diagnóstico de criptococose confirmado laboratorialmente. Os dados pessoais, clínicos e laboratoriais foram coletados a partir da revisão dos prontuários do arquivo médico do HUJBB e os isolados foram identificados e caracterizados morfológica e bioquimicamente. O tipo sexuado e o genótipo foram identificados através de PCR utilizando iniciadores específicos. No período de janeiro de 2010 a dezembro de 2011 foram identificados 59 casos de criptococose. A maioria dos pacientes eram homens (36/59, 61%), com idade entre 5 a 70 anos, média de 30,8 anos. A faixa etária que predominou foi de 34 a 43 anos (39% dos casos). Os principais sinais e sintomas apresentados por eles foram cefaleia (85,5%), vômito (80%) e febre (76,4%). Todas as crianças (6/6) eram HIV negativas, tendo como agente causador o C. gattii (31,6%); já em adultos 71,1% das infecções eram causadas por C. neoformans, sendo a maioria HIV positivo. Os casos de óbito e de recidivas foram mais elevados entre os pacientes infectados por C. neoformans e a presença de sequelas foi mais frequente entre os pacientes infectados por C. gattii. Todos os isolados eram MAT α e houve a predominância de dois tipos moleculares: VNI (64,4%) e VGII (35,6%). Este estudo reforça que o estado do Pará é endêmico para a infecção por Cryptococcus spp., cuja forma de apresentação clinica principal, a meningoencefalite determina elevadas taxas de morbi-mortalidade. / Cryptococcosis is a fungal infection caused by an encapsulated yeast Cryptococcus genus that affects both humans and animals, and is considered as an opportunistic infection commonly associated with immunosuppression. This is one of human fungal infections cause significant morbidity and mortality in both immunocompetent and in immunocompromised individuals and appears mainly in the form of meningoencephalitis. The aim of this study was to characterize epidemiological, genotypic and phenotypic cryptococcosis in a reference unit in the state of Pará. The target population was composed of patients treated at the University Hospital João de Barros Barreto/UFPA, January 2010 to December 2011 with laboratory confirmed diagnosis of cryptococcosis. Personal, clinical and laboratory data were collected from a review of medical records file HUJBB and the isolates were identified and characterized morphologically and biochemically. The type sexed and genotype were identified by PCR using specific primers. From January 2010 to December 2011 were identified 59 cases of cryptococcosis. Most patients were men (36/59, 61%), aged 5-70 years, mean 30.8 years. The predominant age group was 34-43 years (39% of cases). The main signs and symptoms presented by them were headache (85.5%), vomiting (80%) and fever (76.4%). All children (6/6) were HIV negative, and as the causative agent C. gattii (31.6%), while in adults 71.1% of infections were caused by C. neoformans, most HIV positive. The cases of death and recurrence were higher among patients infected with C. neoformans and the presence of sequelae was more frequent among patients infected with C. gattii. All isolates were MAT α and there was a predominance of two molecular types: VNI (64.4%) and VGII (35.6%). This study reinforces that the state of Pará is endemic to infection by Cryptococcus spp., Whose main clinical presentation, meningoencephalitis determines high rates of morbidity and mortality.

Cryptococcus neoformans (C. neoformans), um fungo que se encontra disseminado em várias partes do mundo, inclusive no Brasil, é o responsável pela criptococose infecção oportunista mais comum em pacientes com a síndrome da imunodeficiência adquirida (SIDA). O caráter sistêmico da criptococose pode levar esses pacientes a óbito. A finalidade de se obter um diagnóstico laboratorial rápido e acurado de C. neoformans, principalmente para o seguimento dos pacientes HIV nos levou a investigar \"seqüências iniciadoras\" (Si) A, B e C das regiões 18SrDNA, 5,8SrDNA e ITS do Cryptococcus spp. Pela Nested PCR com estas seqüências, sugerimos a melhor delas para o desenvolvimento de um diagnóstico molecular em relação aos métodos usuais. Para tal, foram avaliadas amostras de soro e líquor de 39 pacientes, que já haviam recebido tratamento clínico. Todos os casos foram selecionados em grupos, como segue:7 com criptococose (GIII), 14 HIV positivos (GIV), 18 HIV positivos associados com a criptococose (GV) em relação a 10 controles - indivíduos sadios (GI) e amostras de culturas referência (GII). Os resultados obtidos pela Nested PCR com as \"Sis\" A, B e C foram comparados àqueles obtidos pelos métodos de diagnóstico convencionais. As análises desse estudo mostraram que as \"Sis\" A, B e C detectam C. neoformans com especificidade variada, tanto no soro (SiA 91,66%, SiB-100%, SiC 75%), como no líquor (SiA 83,33%, SiB 100% e SiC 75%) mas não apresentaram falso positivo, quando esses resultados foram comparados aos obtidos das culturas heterólogas (GVI). A SiB, em líquor, apresentou sensibilidade, acurácia, valores preditivo positivo e negativo, e especificidade de 100% para a detecção de C. neoformans da mesma forma que no soro, porém neste o valor preditivo negativo foi 89%, acurácia 94% e a sensibilidade 88%. Em amostras de soro e líquor, os testes Tinta da China e Látex, mostraram resultados falso positivos para o GIV e falso negativos nos grupos GIII e GV. As análises comparativas entre as técnicas mostraram que a ordem de eficiência da sensibilidade para detecção de C. neoformans no soro foi SiB>SiA=Látex>SiC e no líquor foi SiB> SiA>tinta da China>Látex=SiC. No soro, a especificidade entre as técnicas foi SiB>SiA=Látex>SiC e no líquor foi SiB=tinta da China>Látex>SiA>SiC. De acordo com nossos dados, concluímos que, independente da doença associada (HIV) ou se o paciente for tratado, a SiB foi a melhor seqüência para a detecção de C. neoformans, tanto em amostras diretamente de soro, como de líquor para todos os grupos estudados. Tendo em vista os fatos, acreditamos que, a aplicação da técnica da Nested PCR com a \"SiB\", em amostras de líquor e soro, é um método viável e acurado para realizar o diagnóstico molecular do C. neoformans em pacientes HIV. O uso de amostras de soro, para o segmento dos pacientes com SIDA, durante o tratamento, pode ser a forma menos invasiva em relação ao líquor para a detecção do C. neoformans, com vantagens sobre os métodos utilizados / Cryptococcus neoformans (C. neoformans), a fungus that is widespread in many parts of the world, including Brazil, is responsible for cryptococcosis the most common opportunistic infection in patients with acquired immunodeficiency syndrome (AIDS). The systemic character of cryptococcosis may be fatal. In order to obtain a rapid and accurate laboratory diagnosis to follow - up of HIV-cryptococcosis patients led us to investigate the sensibility and especificity of three primers (A, B and C) of 18SrDNA, 5,8SrDNA and ITS regions of Cryptococcus spp. Using Nested PCR with those primers we suggest the best among them to be used as a method of molecular diagnosis in relation to the usual techniques. For this purpose, the serum and cerebrospinal fluid (CSF) of 39 patients, who had received medical treatment, were evaluated. All cases were separated in groups, as follows: 7 with cryptococcosis (group III), 14 HIV positive (group IV), 18 HIV positive associated with cryptococcosis (group V) were compared to, 10 healthy subjects (group I) controls, as well as to reference cultures (group II) samples. The results obtained by nested PCR with primers A and B and C were compared to those obtained by conventional diagnostic methods. The analyses of primers A, B and C detected C. neoformans both in serum (SiA 91,6%, SiB-100%, SiC 75%), and in CSF (SiA 83,3%, SiB 100% e SiC 75%). Besides, they were specific for the identification of C. neoformans and showed that there were no false positives when compared with heterologous cultures (group VI) samples. The primer B in CSF showed 100% sensitivity, 100% accuracy and 100% predictive values (positive and negative), and 100% specificity for the detection of C. neoformans, the same that occurs in serum, but in this case, with 88% in sensitivity, 89% predictive value negative and 94% accuracy. In serum and CSF samples the China Ink and the Latex tests showed false positive results for group IV and false negative for III and V groups. The comparative analysis among the techniques (Nested PCR, China Ink, Latex) indicated that the efficiency order of sensitivity for the detection of C. neoformans were PrB> PrA = Latex> PrC in serum and PrB > PrA > China Ink> Latex = PrC in CSF. For the serum and CSF specificities the same techniques were used with the following results: PrB>PrA=Latex>PrC and PrB=China Ink>Latex>PrA>PrC. According to our data we conclude that, whether the patients had been under treatment or not, the Nested PCR by PrB was the best way to detect C. neoformans both in serum and in CSF for all groups. The following up of AIDS patients, throughout the course of therapy was found to be feasible, accurate and less invasive to detect C. neoformans by using serum samples (directly)

Submitted by Cleide Dantas (cleidedantas@ufpa.br) on 2014-06-26T12:01:48Z No. of bitstreams: 2 license_rdf: 23898 bytes, checksum: e363e809996cf46ada20da1accfcd9c7 (MD5) Tese_InvestigacaoDanosVisuais.pdf: 6789971 bytes, checksum: 01ae739027df6b9d9a97aa654021e47b (MD5) / Approved for entry into archive by Ana Rosa Silva (arosa@ufpa.br) on 2014-07-29T17:17:33Z (GMT) No. of bitstreams: 2 license_rdf: 23898 bytes, checksum: e363e809996cf46ada20da1accfcd9c7 (MD5) Tese_InvestigacaoDanosVisuais.pdf: 6789971 bytes, checksum: 01ae739027df6b9d9a97aa654021e47b (MD5) / Made available in DSpace on 2014-07-29T17:17:33Z (GMT). No. of bitstreams: 2 license_rdf: 23898 bytes, checksum: e363e809996cf46ada20da1accfcd9c7 (MD5) Tese_InvestigacaoDanosVisuais.pdf: 6789971 bytes, checksum: 01ae739027df6b9d9a97aa654021e47b (MD5) Previous issue date: 2014 / CNPq - Conselho Nacional de Desenvolvimento Científico e Tecnológico / FAPESPA - Fundação Amazônia de Amparo a Estudos e Pesquisas / CAPES - Coordenação de Aperfeiçoamento de Pessoal de Nível Superior / FINEP - Financiadora de Estudos e Projetos / A meningite criptocócica é uma severa doença infecciosa causada pelo Cryptococcus spp. que apresenta alta letalidade e deixa nos sobreviventes uma série de sequelas sensoriais, entre as quais estão as alterações visuais. O objetivo deste estudo foi descrever as perdas visuais sofridas por pacientes, sem história de imunossupressão, diagnosticados com meningite criptocócica, de forma a indicar um possível mecanismo e fatores de risco para essas sequelas visuais. O trabalho foi composto de um estudo de série de casos de pacientes com meningite criptocócica sem história de imunossupressão (n = 7 pacientes, n = 14 olhos) e um estudo transversal analítico de todos os casos de meningite criptocócica sem história de imunossupressão notificados em 14 anos num hospital de referência do Pará (n = 113 casos). No estudo de série de casos, as funções visuais de uma amostra de pacientes foi cuidadosamente analisada por meio de avaliação oftalmológica, testes psicofísicos e eletrofisiológicos. No estudo transversal analítico, foi realizada análise de dados de prontuário com enfoque nas alterações visuais. Observou-se que os pacientes estudados na série de casos apresentaram grave diminuição da acuidade visual e mesmo em pacientes sem queixa visual houve alteração na percepção de cor, na percepção de contraste de luminância em diferentes frequências espaciais e no campo visual. Os testes indicam comprometimento da retina central como principal desencadeadora de uma cascata de alterações que impedem o normal processamento da imagem no córtex visual. Sugere-se que lesões do nervo óptico não foram as únicas responsáveis pelas alterações visuais observadas. Os principais fatores de risco para as alterações visuais observados pelo estudo transversal analítico foram o tempo de doença antes do início do tratamento e a resposta imunológica do paciente. / Cryptococcal meningitis is a severe infectious disease caused by Cryptococcus spp., which has high lethality and causes sensorial sequels. The most important sequels are visual impairments. The aim of this study was to describe the visual losses suffered by patients without immunosupression history, diagnosed with cryptococcal meningitis in order to indicate a possible mechanism and risk factors for the visual sequels. The work was composed by a case series study with cryptococcal meningitis without immunosupression history (n =7 patients, 14 = eyes) and an epidemiological study of all the cases of cryptococcal meningitis without immunosupression history notified during 14 years in the reference hospital of Para State (n = 113 cases). In the case series study, the visual functions of a sample of patients were studied by ophthalmological, psychophysical, and electrophysiological evaluation. The epidemiological study analyzed the medical records data focusing on visual impairment. It was observed that the studied patients in the case series study had visual acuity impairment. Even in patients without clinical complaints, color discrimination, luminance contrast sensitivity, and visual field were impaired. The results indicated central retina commitment as the principal responsible for a cascade of alterations that prevented the normal upstream image processing, at the visual cortex level. It is suggested that the observed visual dysfunction was due not only to optic nerve damage. The principal risk factors for the visual alterations observed in the epidemiological study were disease time before the beginning of the treatment and patient immunological response.

<p>Concurrent with the global escalation of the AIDS pandemic, cryptococcal infections are increasing and are of significant medical importance. Although improvements in antifungal therapy have advanced the treatment of cryptococcosis, the mortality rate is approximately 12% in medically advanced countries, and approaches 50% in less developed regions. Additionally, <italic>C. neoformans</italic> can cause infection in seemingly healthy individuals, elevating its status as a primary human pathogen. Although numerous studies have examined virulence properties, less is understood regarding host immune factors in the lungs during early stages of fungal infection. In the present thesis studies, I examined the roles played by pulmonary surfactant proteins in response to <italic>C. neoformans in vitro</italic> and <italic>in vivo</italic>. We demonstrate that SP-D, but not SP-A, binds to the yeast and increases phagocytosis of poorly encapsulated yeast cells by macrophages, yet concomitantly protects the pathogenic microbes from macrophage-mediated defense mechanisms. Furthermore, we show that SP-D functions as risk factor in vivo</italic> by protecting the yeast cells against oxidant species and thus facilitating disease progression. The results of these studies provide a new paradigm on the role played by surfactant protein D during host responses to <italic>C. neoformans</italic> and, consequently, impart insight into potential future treatment strategies for cryptococcosis.</p> / Dissertation

Submitted by Marlene Santos (marlene.bc.ufg@gmail.com) on 2016-08-01T19:55:39Z No. of bitstreams: 3 Dissertação- Reginaldo Teixeira Nunes - 2014.pdf: 2255035 bytes, checksum: 70c145eb933df8fd6b89f116a91cade4 (MD5) Ata da Defesa de Mestrado. Reginaldo Texeira Nunes.jpg: 2607204 bytes, checksum: fb38ba2b64baafd566c2d99c81304371 (MD5) license_rdf: 0 bytes, checksum: d41d8cd98f00b204e9800998ecf8427e (MD5) / Approved for entry into archive by Luciana Ferreira (lucgeral@gmail.com) on 2016-08-02T12:26:59Z (GMT) No. of bitstreams: 3 Dissertação- Reginaldo Teixeira Nunes - 2014.pdf: 2255035 bytes, checksum: 70c145eb933df8fd6b89f116a91cade4 (MD5) Ata da Defesa de Mestrado. Reginaldo Texeira Nunes.jpg: 2607204 bytes, checksum: fb38ba2b64baafd566c2d99c81304371 (MD5) license_rdf: 0 bytes, checksum: d41d8cd98f00b204e9800998ecf8427e (MD5) / Made available in DSpace on 2016-08-02T12:26:59Z (GMT). No. of bitstreams: 3 Dissertação- Reginaldo Teixeira Nunes - 2014.pdf: 2255035 bytes, checksum: 70c145eb933df8fd6b89f116a91cade4 (MD5) Ata da Defesa de Mestrado. Reginaldo Texeira Nunes.jpg: 2607204 bytes, checksum: fb38ba2b64baafd566c2d99c81304371 (MD5) license_rdf: 0 bytes, checksum: d41d8cd98f00b204e9800998ecf8427e (MD5) Previous issue date: 2014-07-04 / The basidiomycete Cryptococcus neoformans is a pathogenic yeast responsible for causing meningoencephalitis in patients with a compromised immune system, leading to high mortality rates worldwide. Presently available antifungal drugs for treating this disease are not always efficient and they may lead to serious side effects and sometimes to fungal resistance. This situation has caused an increasing search for natural products derived from plants with antifungal action. Cymbopogon winterianus Jowitt (Poaceae), popularly known as citronella and Thymus vulgaris L. (Labiatae), known as thyme, are two plants commonly used in folk medicine. This study aimed at evaluating the biological activity of both C. winterianus and T. vulgaris essential oils (EOs) on C. neoformans clinical isolates. We evaluated the in vitro susceptibility of C. neoformans to each EO by the broth microdilution method, the in vitro interaction between EOs and fluconazole by the checkerboard method, their toxicity on human erythrocytes and their effects on the mitochondrial metabolism of fungal cells. Both EOs showed to possess antifungal activity against the tested isolates, with minimum inhibitory concentrations (MICs) ranging from 32 to 256 μg/mL for C. winterianus and from 32 to 128 μg/mL for T. vulgaris. No synergism between the EOs and fluconazole was observed. C. winterianus and T. vulgaris EOs did not cause hemolysis on human erythrocytes at concentrations corresponding to MIC values, indicating, therefore, low toxicity. The MTT assays showed no alterations on mitochondrial metabolism of fungal cells by C. winterianus at concentrations ≤ 128μg/mL, as well as no alterations at any concentrations corresponding to MIC values by T. vulgaris, suggesting that the main mechanism of action of both EOs is not by interfering with mitochondrial activity. Results show that C. winterianus and T. vulgaris EOs may be promising on the production of new antifungal drugs. / O basidiomiceto Cryptococcus neoformans é uma levedura patogênica causadora de meningoencefalite em pacientes imunocomprometidos, levando a altas taxas de mortalidade em todo o mundo. Os antifúngicos atualmente disponíveis para o tratamento dessa enfermidade nem sempre são eficazes, podendo causar efeitos colaterais graves e levar a casos de resistência. Diante dessa situação, a busca por produtos naturais, com ação antifúngica, oriundos de plantas tem crescido consideravelmente. Cymbopogon winterianus Jowitt (Poaceae), conhecida popularmente como citronela e Thymus vulgaris L. (Labiatae), conhecida como tomilho-branco, são duas plantas comumente utilizadas na medicina popular. Este trabalho avaliou a atividade biológica dos óleos essenciais (OEs) de ambas, em isolados clínicos de C. neoformans. Foram avaliados a suscetibilidade in vitro destes isolados ao OE de cada planta pelo método de microdiluição em caldo, a interação in vitro entre os OEs e fluconazol pelo método de checkerboard, sua toxicidade em eritrócitos humanos e seus efeitos no metabolismo mitocondrial de células fúngicas. Ambos os OEs apresentaram atividade antifúngica, com concentrações inibitórias mínimas (CIMs) variando de 32 a 256μg/mL, para C. winterianus, e de 32 a 128μg/mL para T. vulgaris. Não houve sinergismo entre os OEs e fluconazol. Os OEs de C. winterianus e T. vulgaris não causaram hemólise em eritrócitos humanos nas concentrações correspondentes às CIMs, mostrando-se de baixa toxicidade. Nos ensaios com MTT, observou-se que não houve alterações no metabolismo mitocondrial das células fúngicas por C. winterianus em concentrações iguais ou inferiores a 128μg/mL, e em nenhum dos valores correspondentes às CIMs por T. vulgaris, sugerindo que o principal mecanismo de ação antifúngica desses OEs nas CIMs não ocorre por interferência na atividade mitocondrial. Os resultados obtidos demonstram que OEs de C. winterianus e T. vulgaris podem ser promissores para a produção de novos antifúngicos.

Cryptococcus neoformans, an opportunistic fungal pathogen ubiquitously present in the environment, causes cryptococcal meningitis (CM) mainly in immunocompromised patients, such as AIDS patients. We aimed to identify disease-associated cryptococcal protein antigens targeted by the human humoral immune response. Therefore, we used sera from Colombian CM patients, with or without HIV infection, and from healthy individuals living in the same region. Serological analysis revealed increased titers of anti-cryptococcal IgG in HIV-negative CM patients, but not HIV-positive CM patients, compared to healthy controls. In contrast, titers of anti-cryptococcal IgM were not affected by CM. Furthermore, we detected pre-existing IgG and IgM antibodies even in sera from healthy individuals. The observed induction of anti-cryptococcal IgG but not IgM during CM was supported by analysis of sera from C. neoformans-infected mice. Stronger increase in IgG was found in wild type mice with high lung fungal burden compared to IL-4Ra-deficient mice showing low lung fungal burden. To identify the proteins targeted by human anti-cryptococcal IgG antibodies, we applied a quantitative 2D immunoproteome approach identifying cryptococcal protein spots preferentially recognized by sera from CM patients or healthy individuals followed by mass spectrometry analysis. Twenty-three cryptococcal proteins were recombinantly expressed and confirmed to be immunoreactive with human sera. Fourteen of them were newly described as immunoreactive proteins. Twelve proteins were classified as disease-associated antigens, based on significantly stronger immunoreactivity with sera from CM patients compared to healthy individuals. The proteins identified in our screen significantly expand the pool of cryptococcal proteins with potential for (i) development of novel anticryptococcal agents based on implications in cryptococcal virulence or survival, or (ii) development of an anti-cryptococcal vaccine, as several candidates lack homology to human proteins and are localized extracellularly. Furthermore, this study defines preexisting anti-cryptococcal immunoreactivity in healthy individuals at a molecular level, identifying target antigens recognized by sera from healthy control persons.

Thesis (MScMedSc (Pathology. Medical Microbiology))--University of Stellenbosch, 2010. / ENGLISH ABSTRACT: INTRODUCTION Mycobacterium tuberculosis (MTB) and Cryptococcus neoformans are the most common causes of chronic meningitis in South Africa. Conventional microbiology has limited utility in diagnosing these pathogens due to the paucibacillary nature of cerebrospinal fluid (CSF) and the diagnostic delay associated with culturing methods. This study aimed to evaluate the utility of an in-house polymerase chain reaction (PCR) method for the detection of the etiological agent of chronic meningitis. METHODS CSF samples (where volume exceeded 5ml) were submitted to the Medical Microbiology diagnostic laboratory of the Tygerberg Hospital from patients with suspected tuberculosis meningitis (TBM). Following routine bacteriology, the sample was used to inoculate two mycobacterial growth indicator tubes (MGIT A and B) and subsequently incubated in the BACTEC 960 automated system. MGIT A followed standard operating procedures and the time to culture positivity was noted. Weekly aliquots (up to 6 weeks) were removed from MGIT B. These samples were boiled to inactivate the bacteria and then the DNA was extracted using the Promega Wizard SV Genomic DNA kit. The DNA was then speciated by PCR and high-resolution melting analysis (HRM) by using primers specific to either the RD9 region of MTB complex or primers specific to the partial internal transcribed spacer 1 (ITS1), 5.8S rRNA gene and partial ITS2 sequence of C. neoformans. RESULTS Routine CSF microscopy indicated that 14 of the 78 patients (17.9%) had typical CSF findings of TBM (lymphocytes predominant, increased protein levels and decreased glucose levels). IV Ziehl-Neelsen (ZN) stains were positive for 12 (15.4%) samples, and MTB was cultured from 19 samples (24.4%). Our optimized PCR and HRM method was able to detect M. tuberculosis in 17 of the 19 culture positive specimens with a sensitivity of 89.5% and a specificity of 62.7%. The sensitivity of this method was higher than that of direct microscopy. In all of the PCR positive samples, the time to detection, compared to culture, could be shortened by 1 to 2 weeks. Only one sample was positive for Cryptococcus culture and another sample was positive with a Cryptococcus latex test. PCR for Cryptococcus was positive in 2 cases (n=78), sensitivities and specificities could not be reported due to the low number of positive cases. CONCLUSION We demonstrated that a short culture period and the use of commercial DNA extraction kit on CSF samples increases the sensitivity of molecular tests to diagnose tuberculosis. Furthermore, the molecular techniques could significantly reduce the time to positivity of results, when compared to culture. Due to the low occurrence of Cryptococcus in the samples included in our study, we could not comment on the diagnostic utility of PCR in the diagnosis of Cryptococcal meningitis, when compared to the conventional methods. / AFRIKAANSE OPSOMMING: INLEIDING Mycobacterium tuberculosis (MTB) en Cryptococcus neoformans is die mees algemeenste oorsake van kroniese meningitis in Suid-Afrika. Routine mikroskopie dra beperkte waarde in die diagnose van hierdie patogene as gevolg van die klein hoeveelhede organismes wat in die SSV (serobrospinale vog) voorkom en die lang tyd wat dit benodig om hierdie organisms te kweek. Hierdie studie beoog om die diagnostiese waarde van ‘n polymerase ketting reaksie (PKR) metode wat intern ontwerp is te evalueer vir die identifikasie van patogene verantwoordelik vir kroniese meningitis. METODES SSV monsters (waarvan die volume 5ml oorskry) en waar daar ‘n kliniese vermoede van tuberkulose meningitis (TBM) was, is na die diagnostiese Mediese Mikrobiologie laboratorium van Tygerberg hospitaal gestuur vir roetine bakteriologiese ontleding. Die oorblywende monsters is gebruik om twee mikobakteriële groei-indikasiebuise (MGIT A en B) te innokuleer en hulle is geïnkubeer in ‘n BACTEC 960 geautomatiseerde sisteem. MGIT A is volgens roetine diagnostiese metodes geanaliseer en die tyd tot ‘n positiewe resultaat is aangeteken Weeklikse monsters (tot en met week 6) is uit MGIT B verwyder en die monsters is gekook om sodoende die bakterië te inaktiveer. Die Promega Wizard SV Genomiese DNS ekstraksiemetode is gebruik om die DNS te versuiwer. Spesiëring van die DNS is deur middel van ‘n intern ontwerpte PKR en hoëresolusiesmeltingsmetode (HRS) gedoen met inleiers wat spesifiek is tot die RD9 gedeelte van die MTB kompleks en inleiers spesifiek tot die gedeeltelike interne getranskribeerde spasieerder 1 (ITS1), 5.8S rRNS geen en die gedeeltelike ITS2 DNS volgorde van C. neoformans. VI RESULTATE Roetine SSV mikroskopie het aangedui dat 14 uit 78 (17.9%) pasiënte tipiese SSV bevindings van TBM (oorwegend limfosiete, verhoogde proteïene en verlaagde glukose) gehad het. Ziehl- Neelsen (ZN) kleurings was positief vir 12 (15.4%) monsters, en MTB is gekweek in 19 (24.4%) van hierdie monsters. Ons geoptimaliseerde PKR en HRS metode het daarin geslaag om M. tuberculosis in 17 van die 19 kultuurpositiewe monsters aan te toon met ‘n sensitiviteit van 89.5% en ‘n spesifisitiet van 62.7%. Die sensitiwiteit van die direkte PKR was hoër in vergelyking met mikroskopie. In al die PKR positiewe monsters was die tyd tot aantoning, in vergelyking met kultuur, verkort met 1 tot 2 weke. Slegs een monster het C. neoformans gekweek en ‘n ander monster was positief met die kriptokokkale latekstoets. PKR vir C. neoformans was positief in 2 gevalle (n=78). Die sensitiwiteit en spesifisiteit van die C. neoformans PKR kon nie bepaal word nie weens te min gevalle. GEVOLGTREKKINGS Ons het aangetoon dat ‘n verkorte inkubasieperiode en die gebruik van ‘n kommersiële DNS ekstraksiemetode op SSV monsters die sensitiwiteit van die molekulêre tegniek vir die diagnose van tuberkulose verhoog en dat hierdie metode die tyd na positiwiteit aansienlik verkort in vergelyking met kultuur. Weens die lae getalle van kriptokokkale meningitis in ons studie kon ons nie kommentaar lewer op die akkuraatheid van PKR in die diagnose van kriptokokkale meningitis, in vergelyking met meer konvensionele metodes, nie.

M. Tech. (Department of Biotechnology, Faculty of Applied and Computer Science), Vaal University of Technology| / Pigeon droppings, found in abundance in most cities and towns where pigeons are found, are a source of potential yeast and molds into the environment. Invasive fungal infections are a cause of morbidity and often mortality in immunocompromised individuals. The objective of this study was to the identification of bacterial and mold agents from pigeon droppings. Pigeon droppings samples were collected from three locations during the winter and summer months and studied for the occurrence of bacteria, yeast and molds by utilising culture-independent techniques. Amplification of the 16S rDNA gene and the internal transcribed spacer (ITS) region, cloning and ARDRA and DGGE were used for the characterisation of the microbial populations followed by sequencing. Several mold and yeasts, as well as bacteria were found to be present in pigeon droppings, which can spread into the environment and be transmitted to immunocompromised individuals and children. DGGE analysis of the bacterial communities revealed banding patterns that clustered all but one winter samples and all summer samples, showing a high similarity among the microbial members in both seasons and sample locations. Fungal DGGE analysis revealed clusters that grouped summer and winter samples from Johannesburg and Pretoria while VUT samples were clustered on their own. From the identification of fungal and bacterial DNA, Cryptococcus species was the majority of fungi isolated from the dropping samples. Geotrichum, Kazachstania and Fusarium species were isolated from phylotypes obtained from ITS amplicons analysed by ARDRA. Lactobacillus and Enteroccoccus species, organisms usually found in the gastrointestinal tract were the common bacterial members identified. The results showed no difference in microbial communities across all sample locations, while seasonal changes also had no impact in microbial community patterns.

Die Detektion von Umweltsignalen und die gezielte zelluläre Reaktion ist eine zentrale und für das Überleben aller Lebewesen essentielle Fähigkeit. Candida albicans, als dominierender humanpathogener Pilz, ist hochgradig verschiedenen biochemischen und physikalischen Umweltbedingungen ausgesetzt, welche sowohl die Zellmorphologie als auch die Virulenz dieses Erregers beeinflussen. In der vorliegenden Arbeit wurde der Einfluss von Kohlendioxid, als ubiquitär vorkommendes Gasmolekül, auf die Zellmorphologie und Virulenz untersucht. Erhöhte Konzentrationen von Kohlendioxid stellen ein äußerst robustes Umweltsignal dar, welches die morphologische Transition vom Hefewachstum zum hyphalen Wachstum, einem Hauptvirulenzfaktor, in Candida albicans stimuliert. In diesem Zusammenhang wurde die Rolle der putativen Carboanhydrase Nce103 durch die Generation von knock – out Mutanten untersucht. Die Disruption von NCE103 in C. albicans führt zu einem Kohlendioxid – abhängigen Phänotyp, welcher Wachstum unter aeroben Bedingungen (ca. 0,033% CO2) nicht zulässt, jedoch unter Bedingungen mit einem erhöhten CO2 Gehalt von ca. 5% ermöglicht. NCE103 ist also für das Wachstum von C. albicans in Wirtsnischen mit aeroben Bedingungen essentiell. Durch Untersuchungen zur Enzymkinetik mittels Stopped – flow wurde in dieser Arbeit gezeigt, dass Nce103 die Funktion einer Carboanhydrase erfüllt. Die biochemische Funktion dieser Carboanhydrase besteht in der Fixation von CO2 bzw. HCO3&#713; in der Zelle zur Unterhaltung der wesentlichen metabolischen Reaktionen. Weiterhin konnte gezeigt werden, dass die Induktion hyphalen Wachstums durch CO2 in C. albicans nicht durch den Transport von CO2 mittels des Aquaporins Aqy1 beeinflusst wird. CO2 bzw. HCO3&#713; aktiviert in der Zelle direkt eine Adenylylcyclase (Cdc35), welche sich grundlegend von den bisher gut charakterisierten G-Protein gekoppelten Adenylylcylasen unterscheidet. Die Generation von cAMP beeinflusst in der Folge direkt die Transkription hyphenspezifischer Gene und nachfolgend die morphologische Transition vom Hefewachstum zum elongierten, hyphalen Wachstum. Dieser Mechanismus konnte sowohl in Candida albicans als auch in Cryptococcus neoformans nachgewiesen werden, was auf einen panfungal konservierten Signaltransduktionsmechanismus schliessen lässt. Die Inhibition dieser spezifischen Kaskade eröffnet neue Ansätze zur Entwicklung spezifischer antimykotischer Wirkstoffe. / Detection of environmental signals and subsequently directed reaction is essential for the survival of all living organisms. Candida albicans, as the predominant human fungal pathogen is exposed to severely different physical and chemical conditions, which influence cell morphology as well as virulence in human. In the present work, the influence of carbon dioxide as ubiquitous gaseous molecule on virulence and cell morphology was analysed. Elevated concentrations of carbon dioxide are a robust signal to induce the morphological transition from yeast growth to an elongated hyphal growth form, which is believed to be one of the main virulence factors in Candida albicans. The role of the putative carbonic anhydrase Nce103p in carbon dioxide signalling is reviewed by generating knockout mutant strains, which exhibited a carbon dioxide dependent phenotype. Growth under aerobic conditions (0,033 % carbon dioxide) is inhibited but feasible in 5% carbon dioxide. Therefore, Nce103p is essential for growth in host niches with aerobic conditions. Analysis of the biochemical properties of Nce103p by stopped – flow kinetics revealed carbonic anhydrase activity. It is hypothesised, that Nce103p is essential for fixation of carbon dioxide and bicarbonate within the cell in order to sustain basic metabolic reactions. Furthermore, the induction of hyphal growth was independent of aquaporine-mediated transport of carbon dioxide. Bicarbonate rather carbon dioxide activates directly the adenylyl cyclase Cdc35p generating cyclic AMP as second messenger and influencing the transcription of hyphal specific genes in Candida albicans thus promoting the morphological transition from yeast growth to elongated hyphal growth. This signal transduction cascade is present in Candida albicans as well as Cryptococcus neoformans and it is believed to be a pan fungal signal transduction cascade. The specific inhibition of carbon dioxide mediated polymorphism may serve as a new target for antifungal therapeutic agents.

Submitted by Edisangela Bastos (edisangela@ufpa.br) on 2013-03-19T21:12:44Z No. of bitstreams: 2 license_rdf: 23898 bytes, checksum: e363e809996cf46ada20da1accfcd9c7 (MD5) Dissertacao_NeurocriptococosePediatricaEstado.pdf: 41426488 bytes, checksum: e03544c0c40fd8cd2c95fbcae35a23b6 (MD5) / Approved for entry into archive by Ana Rosa Silva(arosa@ufpa.br) on 2013-03-20T15:31:35Z (GMT) No. of bitstreams: 2 license_rdf: 23898 bytes, checksum: e363e809996cf46ada20da1accfcd9c7 (MD5) Dissertacao_NeurocriptococosePediatricaEstado.pdf: 41426488 bytes, checksum: e03544c0c40fd8cd2c95fbcae35a23b6 (MD5) / Made available in DSpace on 2013-03-20T15:31:35Z (GMT). No. of bitstreams: 2 license_rdf: 23898 bytes, checksum: e363e809996cf46ada20da1accfcd9c7 (MD5) Dissertacao_NeurocriptococosePediatricaEstado.pdf: 41426488 bytes, checksum: e03544c0c40fd8cd2c95fbcae35a23b6 (MD5) Previous issue date: 2001 / Este estudo mostra o espectro de lesões cerebrais, através de tomografia computadorizada, na neurocriptococose da infância, por Cryptococcus neoformans var. gattii, no Estado do Pará. Analisamos os achados tomográficos de onze crianças (menores de 13 anos de idade), com infecção comprovada do sistema nervoso central por Cryptococcus neoformans var. gattii, internados no Hospital Universitário João de Barros Barreto, Belém PA, entre janeiro de 1992 a dezembro de 2000. A neurocriptococose foi definida pela identificação de leveduras encapsuladas ao exame microscópico, isolamento de Cryptococcus neoformans do líquor e identificação positiva da variedade gattii, através do meio composto de canavanina, glicina e azul-de-bromotimol com, pelo menos, o estudo tomográfico no momento do diagnóstico. A idade das crianças estudadas variou entre 6 a 12 anos, com média de 8,8 anos. Cincos eram meninos e seis meninas. Os principais achados clínicos foram cefaléia, febre e rigidez de nuca (n=11), náuseas e vômitos (n=10). O tempo médio entre o início dos sintomas e o diagnóstico foi de 4,2 semanas (variando de 2 a 8 semanas). Todas as tomografias de crânio foram anormais. Em todos os pacientes foram observados nódulos hipodensos. As demais anormalidades tomográficas observadas foram: 6 pacientes com hidrocefalia, 9 com atrofia difusa e 5 com associação de hidrocefalia e atrofia difusa. Descreve-se, pela primeira vez, achados tomográficos em série de casos de neurocriptococose por Cryptococcus neoformans var. gattii em crianças imunocompetentes. Este estudo mostra que esta infecção desenvolve múltiplos nódulos hipodensos, especialmente na região dos gânglios da base e na substância branca cerebral. As lesões, aparentemente progridem para importante atrofia da substância branca, com dilatação ventricular e proeminência de sulcos cerebrais, provavelmente, conseqüência de hidrocefalia compensatória. Em geral, estes pacientes apresentaram alterações leves do córtex cerebral. / This study shows the spectrum of computed tomography (CT) findings in children's neurocryptococcosis due to Cryptococcus neoformans var. gatfii, in the State of Para. We analysed the cranial CT scan appearance of eleven children (younger than 13 years of age) with proven central nervous Cryptococcus neoformans var. gattii infection, between January 1992 and December 2000, who were horizontalized were referred to Hospital universitário João de Barros Barreto, Belém, PA, Brazil. Intracranial cryptococcosis was defined by identification of encapsulated yeast by microscopic examination and isolation of Cryptococcus neoforman from cerebrospinal fluid and positive identification of the var. gattii with use of canavanine-glycine-bromothymol blue agar media, with at least a cranial CT study obtained at the time of the diagnosis. The age range was 6 years to 12 years, with a mean age of 8,8 years. Six were girls and five were boys. The most common clinical findings were headache, fever and nuchal rigidity (n=11 ); nausea and vomiting (n=10). The mean time from onset of symptoms to diagnosis was 4.2 weeks (range, 2 to 8 weeks). No normal cranial CT was detected in any patient. In all patients were observed hypodense nodules. The remaning scan abnomalities were as follows: six had hydrocephalus, nine had diffuse atrophy, and five had hydrocephalus coexistant with diffuse atrophy. We described by the first time cranial CT scan findings in series of case of neurocryptococcosis due Cryptococcus neoformans var. gaftii in immunocompetent children. This study shows that this infection most commonly develops multiple hypodense nodules, mainly in the basal ganglia region and in the cerebral white matter. These lesions apparently progress to important atrophy of the cerebral white matter, with ventricular dilatation and prominence of cerebral sulci, consequent of a presumable compensatory hydrocephalus. In general, these patients present mild changes in cerebral cortex.