O presente trabalho estuda algumas características epidemiológicas de 241 casos de Meningite tuberculosa de pessoas residentes na Grande São Paulo, nos anos de 1982 e 1983. O levantamento de casos foi realizado no Centro de Investigações de Saúde e outras fontes oficiais de informação e complementado pela visitação domiciliária que representou um recurso inestimável para o esclarecimento dos dados. Os casos foram analisados por região de residência, aspectos individuais, núcleos familiares, história da doença, hospitalização, seqüência de tratamento e conhecimento sobre a doença. Os resultados identificam condições insatisfatórias de vida na maioria da população, demora no diagnóstico por falhas assistenciais, alta letalidade hospitalar e desconhecimento do modo de transmissão e prevenção da tuberculose pela maioria das pessoas entrevistadas. O grupo de menores de 5 anos de idade foi o mais comprometido pela ocorrência de seqüelas e, a maior letalidade oi na faixa de 7-12 meses. Ao final do estudo, houve 45,7 por cento de cura, 27,8 por cento de óbito, 13,3 por cento de abandono. Em 13,2 por cento dos casos, alguns permaneciam em observação e outros desconhecidos pelo sistema de controle de notificações. / The present paper studies some epidemiological characteristics of 241 cases of tuberculous miningitis in persons living in the Great São Paulo, State of São Paulo, Brazil, in 1982 and 1983. The survey of cases was worked out at the Center of Health Investigation; other official sources have been consulted, too, being work complemented by domiciliary visitings which represented an invaluable resource for data enlightenment. The cases were analysed taking into account region of dwelling, individual aspects, familiar nucleus, disease history, hospitalization, treatment follow-up and knowledge about the disease. Results identify unsatisfactory life conditions for the majority of the population under study; delay in diagnosing the disease due to failures in assistance; high rate of hospital lethality and lack of knowledge on how tuberculosis is transmitted and prevented by the majority of the persons interviewed with. The age group of children below five years was the one most implicated in as to the occurence of the highest rate of lethality was presented by children aged 7-12 months. At the end of the study, there were 45.7 per cent of healings; 27.8 per cent of deaths; 13.3 per cent of treatment abandonment. In 13.2 per cent of the cases, some persons continued under observation and others remained unknown by the Health System of notifications.

O presente trabalho estuda algumas características epidemiológicas de 241 casos de Meningite tuberculosa de pessoas residentes na Grande São Paulo, nos anos de 1982 e 1983. O levantamento de casos foi realizado no Centro de Investigações de Saúde e outras fontes oficiais de informação e complementado pela visitação domiciliária que representou um recurso inestimável para o esclarecimento dos dados. Os casos foram analisados por região de residência, aspectos individuais, núcleos familiares, história da doença, hospitalização, seqüência de tratamento e conhecimento sobre a doença. Os resultados identificam condições insatisfatórias de vida na maioria da população, demora no diagnóstico por falhas assistenciais, alta letalidade hospitalar e desconhecimento do modo de transmissão e prevenção da tuberculose pela maioria das pessoas entrevistadas. O grupo de menores de 5 anos de idade foi o mais comprometido pela ocorrência de seqüelas e, a maior letalidade oi na faixa de 7-12 meses. Ao final do estudo, houve 45,7 por cento de cura, 27,8 por cento de óbito, 13,3 por cento de abandono. Em 13,2 por cento dos casos, alguns permaneciam em observação e outros desconhecidos pelo sistema de controle de notificações. / The present paper studies some epidemiological characteristics of 241 cases of tuberculous miningitis in persons living in the Great São Paulo, State of São Paulo, Brazil, in 1982 and 1983. The survey of cases was worked out at the Center of Health Investigation; other official sources have been consulted, too, being work complemented by domiciliary visitings which represented an invaluable resource for data enlightenment. The cases were analysed taking into account region of dwelling, individual aspects, familiar nucleus, disease history, hospitalization, treatment follow-up and knowledge about the disease. Results identify unsatisfactory life conditions for the majority of the population under study; delay in diagnosing the disease due to failures in assistance; high rate of hospital lethality and lack of knowledge on how tuberculosis is transmitted and prevented by the majority of the persons interviewed with. The age group of children below five years was the one most implicated in as to the occurence of the highest rate of lethality was presented by children aged 7-12 months. At the end of the study, there were 45.7 per cent of healings; 27.8 per cent of deaths; 13.3 per cent of treatment abandonment. In 13.2 per cent of the cases, some persons continued under observation and others remained unknown by the Health System of notifications.

No / Background: Ethiopia has an extremely high rate of extrapulmonary tuberculosis, dominated by tuberculous lymphadenitis (TBLN). However, little is known about Mycobacterium tuberculosis complex (MTBc) lineages re-sponsible for TBLN in Southwest Ethiopia.Methods:A total of 304 MTBc isolates from TBLN patients in Southwest Ethiopia were genotyped primarily by spoligotyping. Isolates of selected spoligotypes were further analyzed by 15-loci mycobacterial interspersed repetitive unit–variable number tandem repeat (MIRU-VNTR) (n = 167) and qPCR-based single nucleotide polymorphism (n = 38). Isolates were classified into main phylogenetic lineages and families by using the re-ference strain collections and identification tools available at MIRU-VNTRplus data base. Resistance to rifampicin was determined by Xpert MTB/RIF. Results: The majority of isolates (248; 81.6%) belonged to the Euro-American lineage (Lineage 4), with the ill-defined T and Haarlem as largest families comprising 116 (38.2%) and 43 (14.1%) isolates respectively. Of the T family, 108 isolates were classified as being part of the newly described Ethiopian families, namely Ethiopia_2(n = 44), Ethiopia_3 (n = 34) and Ethiopia_H37Rv-like (n = 30). Other sub-lineages included URAL (n = 18), S(n = 17), Uganda I (n = 16), LAM (n = 13), X (n = 5), TUR (n = 5), Uganda II (n = 4) and unknown (n = 19).Lineage 3 (Delhi/CAS) was the second most common lineage comprising 44 (14.5%) isolates. Interestingly, six isolates (2%) were belonged to Lineage 7, unique to Ethiopia. Lineage 1 (East-African Indian) and Lineage 2(Beijing) were represented by 3 and 1 isolates respectively.M. bovis was identified in only two (0.7%) TBLN cases. The cluster rate was highest for Ethiopia_3 isolates showing clonal similarity with isolates from North Ethiopia. Lineage 3 was significantly associated with rifampicin resistance. Conclusions: In TBLN in Southwest Ethiopia, the recently described Ethiopia specific Lineage 4 families were predominant, followed by Lineage 3 and Lineage 4-Haarlem. The contribution of M. bovis in TBLN infection is minimal. / This work was supported by the Mycobacteriology Unit of Instituteof Tropical Medicine, Antwerp, Belgium and interuniversity coopera-tion between Jimma University and Flemish Universities (VLIR-OUSproject).

Thesis (PhD)--Stellenbosch University, 2015. / ENGLISH ABSTRACT: Tuberculous meningitis (TBM) continues to be an important cause of mortality and neurological disability in resource-limited countries. Many questions remain about the best approaches to prevent, diagnose, and treat TBM, and there are still too fewanswers. The aim of this dissertation was to challenge current management strategies in childhood TBM. Accurate prediction of outcome in TBM is of critical importance when assessing the efficacy of different interventions. I conducted a retrospective cohort study of 554 children with TBM less than 13 years of age admitted to Tygerberg Children’s Hospital over a 20 year period (1985-2005) and reclassified all patients according to the criteria of all the currently available staging systems in childhood TBM (chapter 4). In this study, I found that the “Refined Medical Research Council (MRC) staging system after 1 week” had the highest predictive value of all TBM staging systems. It is created by subdivision of stage 2 (2a and 2b) of the existing MRC staging system. Additionally, I proposed and validated a simplified TBM staging system which is less dependent on clinical ability and neurological expertise than current staging systems. The simplified staging system was termed the “Tygerberg Children’s Hospital Scale” (TCH) and relies solely on the patient’s ability to visually fixate and follow and the motor response to pain on both sides. It demonstrated excellent predictive power of outcome after 1 week and did not differ significantly from the “Refined MRC staging system” in this regard. The optimal anti-TB drug regimen and duration of treatment for TBM is unknown. It has been suggested that intensive short-course (6 months) anti-TB therapy may be sufficient and safe. I conducted a prospective descriptive study of 184 consecutively treated children with TBM and found that short-course intensified anti-TB therapy aimed at treating TBM patients (anti-TBM therapy) is sufficient and safe in both HIV-uninfected and HIVinfected children with drug susceptible TBM (chapter 5). The overall study mortality of 3.8% at completion of treatment compares favourably with the median mortality rate of 33% (range 5-65%) reported in a recent review describing outcome in TBM treatmentstudies. TB-immune reconstitution inflammatory syndrome (IRIS) is a potentially life-threatening complication in HIV-infected children with TB of the central nervous system. Little is known about the incidence, case fatality, underlying immunopathology and treatment approaches in HIV-infected children with neurological TB-IRIS. In a case series, I found that neurological TB-IRIS should be considered when new neurological signs develop after initiation of antiretroviral therapy (ART) in children with TBM (chapter 6.1). Manifestations of neurological TB-IRIS include headache, seizures, meningeal irritation, a decreased level of consciousness, ataxia and focal motor deficit. I also discussed the rational for using certain treatment modalities, includingthalidomide. Neurological tuberculous mass lesions (tuberculomas and pseudo-abscesses) may develop or enlarge in children on anti-TBM treatment. These lesions respond poorly to therapy, and may require surgical excision, but may be responsive to thalidomide, a potent inhibitor of tumour necrosis factor-alpha (TNF-alpha). The optimal dose and duration of thalidomide therapy and the correlation with magnetic resonance imaging (MRI) is yet to be explored. The primary objective of our next study was to investigate whether serial MRI is useful in evaluating treatment response and duration of thalidomide therapy (chapter 6.2). A secondary objective was to determine the value of thalidomide in the treatment of these lesions. In a prospective observational study over three years, serial MRI was performed in 16 consecutive children compromised by TB pseudo-abscesses who were treated with thalidomide. The rapid clinical response of most patients suggests that thalidomide provides substantial clinical benefit in this clinical context. I also identified a MRI marker of cure that is evolution of lesions from early stage “T2 bright” with edema to “T2 black.” This finding could be useful in the future management of these patients. Transcranial Doppler imaging (TCDI) is potentially a valuable investigational tool in children with TBM, a condition often complicated by pathology relevant to Doppler imaging such as raised intracranial pressure (ICP) and cerebral vasculopathies. Serial TCDI was performed on 20 TBM children with the aim of investigating cerebral haemodynamics and the relationship between pulsatility index (PI) and ICP (chapter 6.3). In this study, I found that TCDI-derived pulsatility index (PI) is not a reliable indicator of raised ICP in children with tuberculous hydrocephalus which I attributed this to individual variation of tuberculous vascular disease, possibly compromising cerebral vascular compliance and resistance. The study did confirm the efficacy of medical therapy in children with tuberculous communicating hydrocephalus. In all cases, the ICP normalized within 7 days after initiation of acetazolamide and furosemide. In the same cohort of children with TBM I also measured cerebral blood flow velocities (BFV) in the anterior cerebral artery (ACA), middle cerebral artery (MCA) and posterior cerebral artery (PCA) on admission and after day 3 and 7. I found persistent high BFV in all the basal cerebral arteries suggesting stenosis due to vasculitis rather than functional vasospasm. Additionally, I found that complete MCA occlusion, subnormal mean MCA velocities (less than 40 cm/s) and a reduced PI (less than 0.4) correlated with radiological proven large cerebral infarcts. No side-to-side differences in MCA BFV or subnormal PI’s were detected in four TBM children with territory infarcts on admission. I attributed this to the occlusion of a limited number (one or two) of the 9 MCA perforators which has been shown not to affect the hemodynamics of the MCA. I concluded by highlighting the many questions that remain about the best approaches to prevent, diagnose, and treat TBM (chapter 2). In a second literature review, aimed at clinicians working in resource-limited countries, I describe novel approaches to the management of childhood TBM, including a treatment algorithm for tuberculous hydrocephalus, the role for short-course intensified anti-TBM treatment and home-based anti-TBM treatment (chapter 3). Even with the best diagnostic and treatment modalities, outcome in childhood TBM will remain poor if diagnosis is delayed. Our efforts should be on increased awareness and earlier diagnosis. / AFRIKAANSE OPSOMMING: Tuberkuleuse meningitis (TBM) bly ‘n belangrike oorsaak van mortaliteit en neurologiese ongeskiktheid in lande met beperkte hulpbronne. Baie vrae oor die beste benaderings tot voorkoming, diagnose en behandeling van TBM bly bestaan en daar is steeds te min antwoorde. Die doel van die verhandeling was om huidige behandelingstrategieë van tuberkuleuse meningitis (TBM) in kinders uit te daag. Akkurate voorspelling oor die uitkoms van TBM is van kritieke belang wanneer doeltreffendheid van verskillende ingrypings beoordeel word. Ek het ‘n retrospektiewe kohort studie van 554 kinders jonger as 13 jaar met TBM wat in Tygerberg Kinderhospitaal toegelaat is oor `n tydperk van twintig jaar (1985 tot 2005) uitgevoer en al die pasiënte volgens die kriteria van al die huidig beskikbare stadiëringsisteme vir kinder TBM geherklassifiseer (hoofstuk 4). Die waarde van die verskillende stadiëringsisteme in die voorspelling van neurologiese uitkoms is toe bepaal. In hierdie studie het ek bevind dat die “Verfynde Mediese Navorsings Raad (MNR) stadiëringsisteem na 1 week” die TBM stadiëringsisteem met die hoogste voorspellende waarde was om neurolgiese uitkoms te voorspel. Dit is geskep deur onderverdeling van stadium 2 (2a en 2b) van die bestaande gemodifiseerde MNR stadiëringsisteem. Daarbenewens het ek ’n vereenvoudigde stadiëringsisteem vir TBM wat minder afhanklik van kliniese vermoëns en neurologiese kundigheid sal wees as die bestaande stadiëringsisteme daargestel en getoets. Die vereenvoudigde stadiëringsisteem is die “Tygerberg Kinderhospitaal Skaal (TKH)” genoem en dit is slegs gebaseer op `n pasiënt se vermoë om visueel te fikseer en te volg en die motoriese respons tot pyn aan beide kante van die ligaam. Dit het uitstekende voorspellingswaarde gehad vir uitkoms na die eerste week van siekte en het in hierdie verband nie betekenisvol verskil van die “Verfynde MNR stadiëringsisteem” nie. Die optimale anti-TB middel regimen en duurte van behandeling vir TBM is onbekend. Sommige kenners stel voor dat ‘n intensiewe kort-kursus (6 maande) van anti-TB behandeling veilig en voldoende mag wees. Ek het ‘n prospektiewe beskrywende studie op 184 opeenvolgende kinders met TBM uitgevoer en bevind dat intensiewe kort-kursus anti-TB behandeling gemik op die behandeling van kinders met TBM (anti-TBM behandeling) in beide menslike immuniteitgebrekvirus (MIV)-ongeïnfekteerde en MIV-geïnfekteerde kinders met middel-gevoelige TBM voldoende en veilig was (hoofstuk 5 ). Die mortaliteit in my studie met voltooing van behandeling vergelyk gunstig met die mediane mortaliteit van 33% (reikwydte 5-65%) wat onlangs in ‘n oorsig van uitkoms in TBM gerapporteer is. TB immuun rekonstitusie inflammatoriese sindrome (IRIS) is ‘n potensieël lewensbedreigende komplikasie in MIV-geïnfekteerde kinders met TB van die sentrale senuwee sisteem (SSS). Min is oor die voorkoms, mortaliteit, onderliggende immunopatologie en behandelingsbenaderings in MIV-geïnfekteerde kinders met neurologiese TB-IRIS bekend. In `n gevalle-reeks het ek gevind dat neurologiese TB-IRIS oorweeg moet word as nuwe neurologiese tekens na aanvang van antiretrovirale terapie (ART) in MIV-geïnfekteerde kinders met TBM ontwikkel (hoostuk 6.1). Simptome en tekens van neurologies TB-IRIS behels hoofpyn, konvulsies, meningiale prikkeling, ‘n verlaagde vlak van bewussyn, ataksie en fokale motoriese uitval. Ons bespreek ook die rasionaal vir die gebruik van sekere behandelingsmodaliteite, insluitende thalidomied. Neurologiese tuberkuleuse massaletsels (tuberkulome en pseudo-absesse) mag ontwikkel of vergroot in kinders op anti-TBM behandeling. Hierdie letsels reageer swak op terapie, vereis soms chirurgiese verwydering, maar kan op talidomied behandeling reageer, ‘n kragtige inhibeerder van tumor nekrose faktor-alfa (TNF-α). Die optimale dosis en duurte van thalidomide behandeling en die korrelasie met magnetiese resonansbeelding (MRB) moet nog ondersoek word. Die primêre doel van my volgende studie was om te bepaal of seriële MRB van waarde is om die respons op behandeling te evalueer asook die duurte van talidomied behandeling. Die sekondêre doelwit was om die waarde van talidomied in die behandeling van hierdie letsels te bepaal. In ‘n prospektiewe waarnemingstudie wat oor 3 jaar gestrek het is seriële MRB uitgevoer op 16 opeenvolgende kinders met TB pseudo-absesse wat behandel is met talidomied (hoofstuk 6.2). Die spoedige kliniese verbetering van die meeste pasiënte dui daarop dat thalidomied `n aansienlike kliniese voordeel bied in hierdie kliniese konteks. Verder het ek `n MRB merker van genesing geïdentifiseer naamlik evolusie van die letsel van vroeë stadium “T2 helder” met edeem na “T2 swart”. Hierdie bevinding is van groot waarde in die toekomstige behandeling van TBM pasiënte wat hierdie komplikasie ontwikkel. Transkraniale Doppler beelding (TKDB) is potensieël `n waardevolle ondersoekmetode in kinders met TBM, `n toestand wat dikwels gekompliseer word deur patologie verwant aan Doppler beelding soos verhoogde intrakraniale druk (IKP) en serebrale vaskulopatieë. Seriële TKBD is op 20 TBM kinders uitgevoer om serebrale hemodinamika en die verband tussen die pulsatiele indeks (PI) en IKP te ondersoek (hoofstuk 6.3). In hierdie studie het ek gevind dat TKDB-afgeleide PI nie `n betroubare aanduiding van verhoogde IKD in kinders met tuberkuleuse hidrokefalus is nie en dit aan individuele variasies van tuberkuleuse vaskulêre siekte toegeskryf, wat serebrale vaskulêre toegeeflikheid en weerstand benadeel. Die studie het die doeltreffendheid van mediese behandeling in kinders met kommunikerende tuberkuleuse hidrokefalus bevestig. In alle gevalle het die IKP binne 7 dae na aanvang van asetosoolamied en furosemied genormaliseer. In dieselfde groep TBM kinders het ek die serebrale bloedvloei-snelhede (BVS) in die anterior serebrale arterie (ASA), middel serebrale arterie (MSA) en posterior serebrale arterie (PSA) met toelating en na dag 3 en 7 gemeet. Ek het volgehoue hoё BVS in al die basale arteries gevind wat op stenose sekondêr tot vaskulitis eerder as funksionele vasospasma dui. Daarbenewens het ek gevind dat volledige MSA afsluiting, subnormale gemiddelde MSA snelhede (minder as 40 sentimeter per sekonde) en `n verminderde PI (minder as 0.4) met radiologies-bewysde groot serebrale infarksies gekorreleer het. Geen kant-tot-kant verskille in MSA BVS of subnormale PI’s is in vier TBM kinders met kleiner infarksies met toelating bespeur nie. Ek skryf dit toe aan die afsluiting van `n beperkte aantal (een of twee) van die nege MSA perforators wat nie nie die hemodinamika van die MSA beïnvloed nie. Ek het afgesluit om al die vrae wat nog bestaan oor die beste benadering ten opsigte van voorkoming, diagnose and behandeling van TBM uit te wys (hoofstuk 2). In die tweede literatuuroorsig, wat gemik is op dokters wat werk in hulpbron-beperkte lande, beskryf ek nuwe benaderings tot die hantering van pediatriese TBM, insluitend `n behandelingsalgoritme vir tuberkuleuse hidrokefalus, die rol van kort- kursus versterkte anti-TB behandeling vir TBM en tuis-gebaseerede anti-TBM behandeling (hoofstuk 3). Selfs met die beste diagnostiese en behandelingsmodaliteite, is die uitkoms van kinder TBM swak indien diagnose vertraag word. Ons pogings moet daarom op groter bewustheid en vroeёr diagnose berus.

Master of Public Health - MPH / Meningitis is a common opportunistic infection and an important cause of mortality among people living with HIV and AIDS globally. This study investigated meningitis in adults living with HIV and AIDS admitted to the medical wards of Livingstone tertiary hospital in Port Elizabeth in 2018 and determined the prevalence of its aetiological types, clinical presentations, diagnostic challenges, treatment outcomes and predictors of prognosis.

Made available in DSpace on 2014-06-11T19:27:21Z (GMT). No. of bitstreams: 0 Previous issue date: 2008-03-14Bitstream added on 2014-06-13T20:16:36Z : No. of bitstreams: 1 pedro_hsp_me_sjrp.pdf: 1004378 bytes, checksum: d89276d95fd4738ef5918762497df5ea (MD5) / São José do Rio Preto (SJRP), localizada na região Noroeste do Estado de São Paulo, Sudeste do Brasil, é considerada Município prioritário pelo Programa Nacional de Controle da Tuberculose e da AIDS. O objetivo deste trabalho foi avaliar retrospectivamente pacientes infectados pelo HIV com pelo menos um isolamento de Mycobacterium sp., atendidos em unidades de saúde de referência de SJRP e região, bem como descrever seus aspectos clínicos e sócio–demográficos. Foram avaliados no período de janeiro de 2000 a dezembro de 2006, 198 indivíduos soropositivos para o HIV com culturas positivas no Instituto Adolfo Lutz de SJRP. Houve uma correlação positiva entre a tuberculose e o registro de detenção (p=0.021). O uso do tabaco reduziu o tempo de vida entre o diagnóstico e o óbito (p=0.05). Houve associação entre o isolamento de M. tuberculosis (MT) e os níveis de linfócitos TCD4+ bem como o achado difuso para RX de tórax (p=0.014 e 0.000, respectivamente). Aproximadamente 11% de todas as cepas de MT mostraram resistência a pelo menos uma droga, enquanto 3.1% foram multiresistentes. Micobactérias não tuberculosas (MNT) totalizaram 35.19% de todos os isolamentos e a maioria das espécies pertence ao complexo Mycobacterium avium (MAC; 22.3%), seguido por M. fortuitum (5.2%) e M.gordonae (3.1%). Conclui-se que a população HIV estudada tem alta prevalência de colonização por MNT. Em um país com extensão continental como o Brasil, o conhecimento das diferenças regionais na distribuição de MNT em populações infectadas pelo HIV pode contribuir para o controle e tratamento dessas infecções oportunistas. / São José do Rio Preto city (SJRP), Northwestern São Paulo State, Southeast Brazil, is considered “priority” by the National Programs of Tuberculosis and AIDS Control. Our purpose was to retrospectively evaluate Mycobacterium sp. isolated from HIV-infected patients attending the HIV/TB reference health care units from SJRP and region, as well as to describe their clinical and socio-demographic aspects. One hundred and ninetyeigth HIV-seropositive individuals provided 287 positives cultures from January 2000 to December 2006. There was a positive correlation between tuberculosis and prison record (p=0.021) and tobacco use reduced the mean lifetime from tuberculosis diagnosis to obit (p = 0.05). TCD4+ levels and a diffuse chest X-ray finding were associated to Mycobacterium tuberculosis (MT) isolation (p = 0.014 and 0.000, respectively). Approximately eleven percent of all MT strains showed resistance to at least one drug while 3.1% were multidrug resistant. Non-tuberculous mycobacteria (NTM) totalized 35.19% of all species and the most frequently isolated ones were Mycobacterium avium complex (MAC; 22.3%), M. fortuitum (5.2%) and M. gordonae (3.1%). We conclude that the HIV-infected population studied has a high prevalence of NTM colonization. In a wide country like Brazil, regional differences on NTM distribution in HIV-infected individuals must be further evaluated in order to improve control and treatment of these opportunistic infections.

Orientador: Andréa Baptista Rossit / Banca: Daisy Nakamura Sato / Banca: Silvia Helena Vendramine / Resumo: São José do Rio Preto (SJRP), localizada na região Noroeste do Estado de São Paulo, Sudeste do Brasil, é considerada Município prioritário pelo Programa Nacional de Controle da Tuberculose e da AIDS. O objetivo deste trabalho foi avaliar retrospectivamente pacientes infectados pelo HIV com pelo menos um isolamento de Mycobacterium sp., atendidos em unidades de saúde de referência de SJRP e região, bem como descrever seus aspectos clínicos e sócio-demográficos. Foram avaliados no período de janeiro de 2000 a dezembro de 2006, 198 indivíduos soropositivos para o HIV com culturas positivas no Instituto Adolfo Lutz de SJRP. Houve uma correlação positiva entre a tuberculose e o registro de detenção (p=0.021). O uso do tabaco reduziu o tempo de vida entre o diagnóstico e o óbito (p=0.05). Houve associação entre o isolamento de M. tuberculosis (MT) e os níveis de linfócitos TCD4+ bem como o achado difuso para RX de tórax (p=0.014 e 0.000, respectivamente). Aproximadamente 11% de todas as cepas de MT mostraram resistência a pelo menos uma droga, enquanto 3.1% foram multiresistentes. Micobactérias não tuberculosas (MNT) totalizaram 35.19% de todos os isolamentos e a maioria das espécies pertence ao complexo Mycobacterium avium (MAC; 22.3%), seguido por M. fortuitum (5.2%) e M.gordonae (3.1%). Conclui-se que a população HIV estudada tem alta prevalência de colonização por MNT. Em um país com extensão continental como o Brasil, o conhecimento das diferenças regionais na distribuição de MNT em populações infectadas pelo HIV pode contribuir para o controle e tratamento dessas infecções oportunistas. / Abstract: São José do Rio Preto city (SJRP), Northwestern São Paulo State, Southeast Brazil, is considered "priority" by the National Programs of Tuberculosis and AIDS Control. Our purpose was to retrospectively evaluate Mycobacterium sp. isolated from HIV-infected patients attending the HIV/TB reference health care units from SJRP and region, as well as to describe their clinical and socio-demographic aspects. One hundred and ninetyeigth HIV-seropositive individuals provided 287 positives cultures from January 2000 to December 2006. There was a positive correlation between tuberculosis and prison record (p=0.021) and tobacco use reduced the mean lifetime from tuberculosis diagnosis to obit (p = 0.05). TCD4+ levels and a diffuse chest X-ray finding were associated to Mycobacterium tuberculosis (MT) isolation (p = 0.014 and 0.000, respectively). Approximately eleven percent of all MT strains showed resistance to at least one drug while 3.1% were multidrug resistant. Non-tuberculous mycobacteria (NTM) totalized 35.19% of all species and the most frequently isolated ones were Mycobacterium avium complex (MAC; 22.3%), M. fortuitum (5.2%) and M. gordonae (3.1%). We conclude that the HIV-infected population studied has a high prevalence of NTM colonization. In a wide country like Brazil, regional differences on NTM distribution in HIV-infected individuals must be further evaluated in order to improve control and treatment of these opportunistic infections. / Mestre

La tuberculose (TB) est encore aujourd’hui une cause majeure de morbidité et mortalité dans le monde. Sa maitrise a été rendue difficile par l’épidémie de VIH et la résistance au antituberculeux. La méningite tuberculose (MTB), est la forme la plus grave de TB et est un des indicateurs utilisés pour la politique vaccinale par le BCG. La multirésistance aux antituberculeux (MDR) qui pose des problèmes diagnostiques et thérapeutiques est surveillée depuis 1992 en France. En revanche, la mono-résistance à la Rifampicine (mono-RMP-R) qui représente une première étape vers la TB MDR est rarement étudiée et le devenir des malades est inconnu en France. Notre travail a été axé sur l’épidémiologie de la MTB et l’impact des modifications de stratégie vaccinale par le BCG. Nous avons pour cela utilisé deux systèmes de surveillance de la tuberculose en France : un réseau national de laboratoires coordonné par le centre national de référence des mycobactéries (CNR), et le système de la déclaration obligatoire (DO), coordonné par l’Institut de Veille Sanitaire (InVS). Nous avons également utilisé le réseau du CNR pour évaluer la monorésistance à la rifampicine dans la TB en France. Nous avons tout d’abord évalué le taux d’incidence de la tuberculose du système nerveux central à culture positive (TB SNC C+) en France en 2007 (année de modification de la politique vaccinale) et son évolution entre 1990 et 2007. En 2007, la TB SNC C+ représentait moins de 1% de tous les cas tuberculose à culture positive et son incidence était de 0,5/million d’habitants. La sensibilité du réseau du CNR était de 79,4%. Pour évaluer l’évolution de la TB SNC C+ entre 1990 et 2007, nous avons utilisé une sensibilité « moyenne » dérivée de la sensibilité du CNR pour l'année 2000 (75,6%) et celle pour l'année 2007 pour corriger le nombre de cas signalés dans chacune des 4 études (1990, 1995, 2000, 2007). Nous avons observé une diminution de 62% du nombre corrigé de TB SNC C+ en 17 ans (90 à 35 cas) et du taux d'incidence corrigé (de 1,6 à 0,55 cas par million d'habitants) (P < 0.001). Ensuite, nous avons mesuré l’impact des deux changements majeurs de la politique vaccinale par le BCG en 2006 (arrêt de la multipuncture) et 2007 (arrêt du BCG obligatoire), sur l’épidémiologie de la MTB chez les enfants <6 ans en France entre 2000 et 2011. Au total, 10 cas de MTB à culture positive et 17 cas de MTB possibles (culture négative ou inconnue) ont été identifiés, avec un taux d’incidence annuel variant de 0,16 à 0,66 cas/10 million habitants. En Ile de France où tous les enfants sont considérés « à risque » et donc devraient tous être vaccinés, ou dans les autres régions, où seuls les enfants à risque sont vaccinés depuis 2007, il n’existait aucune différence significative des taux d'incidence annuels pour chaque cohorte d’un an. Ces résultats renforcent la décision d'arrêter de la vaccination universelle par le BCG en 2007. Toutefois une surveillance étroite de la TB SNC dans les années à venir sera nécessaire pour évaluer l'impact long-terme de la nouvelle stratégie vaccinale. Finalement, nous avons mis en place par le biais du réseau des laboratoires du CNR une cohorte rétrospective des cas de TB mono-RMP-R diagnostiqués en France entre 2005 et 2010. Au total, 39 cas de TB mono-RMP-R (soit 0.12% des cas de TB) ont été recensés. Parmi tous ces patients, 19 cas (49%) avaient un antécédent de traitement de leur tuberculose, et 9 (23%) étaient infectés par le VIH. Les données sur le traitement et le devenir étaient disponibles pour 30 des 39 patients et seulement 20 (67%) ont été considérés guéris. Les traitements reçus tant en terme de drogues que de durée étaient hétérogènes. Ces résultats suggèrent qu’il faut améliorer la prise en charge des malades atteints de TB mono-RMP-R en France. / Tuberculosis (TB) remains a major cause of morbidity and mortality worldwide, partly because of drug resistance anf the HIV epidemics. Tuberculous meningitis (TBM) is the most severe form of the tuberculosis disease, and is one of the indicators used for the BCG vaccination policy. Multidrug resistant tuberculosis (MDR-TB), which poses diagnostic and therapeutic problems, has been monitored since 1992 in France. On the opposite, rifampicin mono-resistance (RMR) tuberculosis (TB) which represents a first step toward MDR-TB is rarely studied and the impact of rifampicin mono-resistance on patient’s outcome is unknown in France. Our work was focused on the epidemiology of MTB and the impact of changes in the BCG vaccination strategy. We used two systems implemented for the surveillance of TB in France: a nationwide laboratory network coordinated by the National Reference Centre (NRC) for Mycobacteria and Resistance of Mycobacteria to Anti-tuberculosis Drugs and the mandatory notification system of TB (MNS) coordinated by the National Institute for Public Health Surveillance (Institut de Veille Sanitaire, InVS). The NRC network was also used to evaluate Rifampicin mono-resistant tuberculosis in France. First, we assessed the incidence rate of culture-positive (C+) central nervous system tuberculosis (CNS TB) in France in 2007 (the year of the changing policy on BCG vaccination) and its time trend between 1990 and 2007. In 2007, CNS TB represented less than 1% of all culture-positive TB cases and its incidence was around 0.50 per million inhabitants. The 2007 sensitivity of the NRC was 79.4%. To assess the evolution of C+ CNS TB between 1990 and 2007, we used an average sensitivity derived from the 2000 sensitivity of the NRC (75.6%) and the sensitivity for the year 2007. The average sensitivity was used to correct the number of C+ CNS TB reported in four surveys (1990, 1995, 2000, 2007). There was a major decrease of 62% in the extrapolated number of C+ CNS TB in seventeen years (from 90 to 35 cases), and in the extrapolated incidence rate (from 1.6 to 0.55 cases per million inhabitants) (P < 0.001). Then, we measured the impact of two major changes in BCG vaccination policy in 2006 (disappearance of the multipuncture device for BCG) and 2007 (end of compulsory BCG vaccination) on the epidemiology of TBM in children under 6 years in France between 2000 and 2011. Overall, 10 culture-positive and 17 possible (negative-culture or unknown microbiological result) cases of TBM were identified, with an annual incidence rate varying from 0.16 to 0.66 cases / 10 million inhabitants. In Ile-de-France, where all children are considered “at risk” and therefore should all be vaccinated, and in the other regions where only at-risk children are considered for vaccination since 2007, no statistically significant differences in the annual incidences rates for each one-year age-group cohort could be observed. These results reinforce the 2007 decision to stop universal BCG vaccination. However, a close monitoring of CNS TB in the coming years will be needed to assess the long-term impact of the new vaccination policy. Finally, we built, through the NRC national network of laboratories, a retrospective cohort of RMR TB cases diagnosed between 2005 and 2010. A total of 39 cases with RMR TB were identified (0.12% of all TB culture positive cases). Among all patients, 19 (49%) had a previous history of TB treatment, and 9 (23%) were HIV-coinfected. Data about treatment and outcome were available for 30 of 39 patients and only 20 (67%) were considered as cured. Treatments received both in terms of drugs and duration were heterogeneous. These results suggest the need to improve the management of patients with RMR TB in France.

Den mest välkända arten i släktet Mycobacterium som kan orsaka sjukdom hos människan är Mycobacterium tuberculosis (MTB). Infektioner av andra mykobakterier ökar världen över. Dessa benämns icke-tuberkulösa mykobakterier (NTM) och orsakar ofta liknande symtom som de vid MTB-infektion. Vanligtvis krävs dock olika behandlingar beroende på om infektionen är orsakad av MTB eller av NTM. Nuvarande diagnostik bygger på odling och mikroskopi, men analyser som innefattar molekylärbiologiska metoder för undersökning av mykobakteriers DNA blir allt vanligare. I denna studie jämfördes olika PCR-metoder för identifiering av NTM, där metoderna baserades på två tidigare publicerade artiklar. Tester gjordes på DNA från sex NTM-stammar med MTB-DNA som referens. För påvisning av hela släktet Mycobacterium användes primers riktade mot hsp65 och 16S, och för att kunna urskilja MTB från NTM användes primers riktade mot IS6110, IS1081 och ITS-MTC. Undersökningarna visade lägre Ct-värden och högre PCR-effektivitet för hsp65 än för 16S men tester med avseende på MTB-specifika primers visade samtliga amplifiering även för NTM. / The most well-known species of the genus Mycobacterium that can cause human disease is Mycobacterium tuberculosis (MTB). Infections caused by other mycobacteria is an increasing problem worldwide. These mycobacteria are known as non-tuberculous mycobacteria (NTM) and they often cause similar symptoms as those in MTB-caused infections. Usually different treatments are required depending on if the infection is caused by NTM or MTB. Current diagnostic methods are based on culture and microscopy, though molecular methods are becoming more common. In this study different PCR-methods for identification of NTM’s were compared. The different methods were based on two earlier published articles. Experiments were made with DNA from six NTM-species and with DNA from MTB as reference. To detect all mycobacteria primers targeting hsp65 and 16S were used, and primers targeting IS6110, IS1081 and ITS-MTC were used to separate MTB from NTM. This study showed lower Ct-values and higher PCR-efficiency for hsp65 than for 16S, but comparative tests regarding MTB-specific primers showed, with all three primer pairs, amplification of NTM as well.

The aim of this study was to investigate the diversity and prevalence of non-tuberculous mycobacteria (NTM) in cattle, African buffaloes and their environments in South Africa and the potential of these NTM to elicit cross- reactive immune responses in these animal species which may in turn lead to false diagnosis of bovine tuberculosis. A total of 40 NTM species were identified during a countrywide survey. Mycobacterium terrae, Mycobacterium nonchromogenicum, Mycobacterium vaccae/ Mycobacterium vanbaalenii and a group of isolates closely related to Mycobacterium moriokaense (M. moriokaense-like isolates) were the four most frequently isolated species. Further characterization of M. moriokaense- like isolates revealed two novel NTM species which were named Mycobacterium malmesburii sp.nov. and Mycobacterium komanii sp.nov. respectively. Genomes of M. nonchromogenicum, M. malmesburii sp. nov., M. komanii sp. nov., and M. fortuitum ATCC 6841 were elucidated and investigated for genes encoding homologues of M. bovis predominant immunogenic proteins. These included genes encoding for the Esx family proteins (esx genes), mpb70, mpb63, mpb64, hspX, tpx, Rv1120c, canA and dnaK. The esx gene orthologs encoded in ESX-1 (esxA and esxB), ESX-3 (esxH and esxG), esxR, and ESX-4 (esxT and esxU) loci were identified in the NTM genomes while those encoded in ESX-2 locus were absent in all the four NTM genomes and only esxN (encoded in the ESX-5 locus) and its homologue, esxK were present in M. nonchromogenicum. Gene orthologs encoding for MPB70 (M. malmesburii sp.nov. and M. komanii sp.nov.), DnaK (all four NTM species), CanA (all four NTM species), MPB64 (all four NTM species), Rv1120c (in all four NTM species), TpX, MBP63 and HspX (all in M. nonchromogenicum and M. fortuitum), were found in the NTM genomes. In contrast orthologs of mpb83 and espC were not detected in any of the four NTM. We could not judge just based on the overall protein sequence homologies of the antigens whether the NTM homologues will give rise to cross-reactive immune responses. We consequently checked the existence in NTM of epitopes shown to be immunogenic in M. bovis and M. tuberculosis. Amino acid sequence alignment of the EsxA and EsxB of the NTM sequenced in this study as well as M. smegmatis, M. bovis and M. tuberculosis respectively was done to investigate their similarities at “immunogenic” epitope level. In this analysis, we found that the six bovine T-cell recognized epitopes of M. bovis ESAT-6 described by Vordermeier et al., 2003 and 2007 had similarities to those of M. fortuitum and M. nonchromogenicum (showing sequence similarity of as high as 81.28% and as low as 52.9% ). Likewise a certain degree of sequence similarity between the six M. bovis CFP 10 immunogenic epitopes and those of the NTM species (highest similarity of 75% observed between all NTM and M. bovis and lowest similarity of 50% between M. komanii sp.nov, M. malmesburii sp.nov and M. bovis.) was observed. Still, with sequence homologies of less than 100% between the M. bovis immunogenic epitopes and those of the NTM, it was difficult to unambiguously predict T-cell cross-recognition. Comparison of the EsxR and EsxH amino acid sequences at immunogenic epitope level, revealed higher sequence similarities in the epitopes of NTM and those of M. bovis than the predicted protein sequences of EsxA and EsxB. A sequence similarity of 100% was observed between two of the five M. bovis immunogenic epitopes of EsxR and those of M. fortuitum, M. malmesburii sp. nov. and M. komanii sp.nov. Full cross- recognition of these NTM EsxR epitopes is therefore highly likely, and may lead to misdiagnosis of bovine Tuberculosis (BTB). The other three EsxR/EsxH epitopes shown to be immunogenic in M. bovis also exist in the three NTM showing similarity of as low as 77.7%. / Thesis (PhD)--University of Pretoria, 2015. / WOTRO Science for Global Development / Genomics Research Institute (GRI) / Veterinary Tropical Diseases / PhD / Unrestricted