Lower respiratory tract infectious diseases are a world-wide healthcare burden with bacterial pathogens accounting for a large portion of primary and secondary infections. The human respiratory tract is home to hundreds of species of microbes that comprise the human airway microbiome. These commensals play a crucial role in human health in part by providing colonization resistance against pathogens. In a previous study from the Surette lab it was shown that specific bacterial isolates from the respiratory microbiome inhibits the growth of pathogens aerobically. This included an isolate of Staphylococcus aureus which inhibited the growth of Enterococcus faecium. This activity was further characterized in this thesis and the underlying mechanism was explored through comparative genomics. As well, this observation provided proof-of-concept for a large-scale screen for additional isolates which inhibit pathogen growth. I hypothesized that the respiratory tract microbiota included many other bacteria capable of inhibiting the growth of respiratory tract pathogens in both aerobic and anaerobic environments, and that anaerobic conditions will identify new activities not detected aerobically. To examine and identify potential beneficial bacteria, I have screened ~5000 respiratory tract bacteria from the Surette lab’s airway isolate collection against four pathogens: Streptococcus pneumoniae, Staphylococcus aureus, Pseudomonas aeruginosa and Klebsiella pneumoniae. The respiratory tract commensals were pinned onto the pathogen-lawn and their interaction was expressed as zones of clearing or altered growth phenotypes of the pathogen. The results of the screen showed that anti-pathogen activity was a common feature of respiratory tract commensals. In particular, S. pneumoniae was inhibited by taxonomically diverse members of the microbiota representing three phyla (Proteobacteria, Firmicutes and Actinobacteria). Many of the facultative anaerobes that inhibited S. pneumoniae expressed their activity in anerobic conditions. / Thesis / Master of Science (MSc) / The human respiratory tract harbours commensal and pathogenic bacteria, and the latter cause most of the lower respiratory tract infections. The commensal bacteria help to train the immune system and impede the growth of pathogens through colonization resistance. A previous study by the Surette lab identified bacterial isolates from the respiratory tract that inhibit the growth of select pathogens, among them, a particular strain of Staphylococcus aureus. Based on the results of the earlier study, I hypothesized that the respiratory tract bacteria is a good source of commensals that can inhibit the growth of S. aureus and other respiratory pathogens, such as Streptococcus pneumoniae, Pseudomonas aeruginosa and Klebsiella pneumoniae. To find potential therapeutic bacteria, I screened ~5000 respiratory tract isolates from the Surette lab’s strain collection for the ability to impair growth of target pathogens. Additionally, I further characterized the activity of the previously identified S. aureus strain against various Lactobacillalles strains and used comparative genomics to identify potential biosynthetic genes required for biosynthesis of molecules with antibacterial activity within the genome of S. aureus. The research reported in this thesis demonstrates that many commensal bacteria that live within our airways have the ability to inhibit the growth of bacterial pathogens. This work may provide a new source of antibiotics against respiratory infections and new strategies to reduce susceptibility to infections in vulnerable populations.

Thesis (MSc)--University of Stellenbosch, 2006. / ENGLISH ABSTRACT: Strain ST4SA, isolated from soya beans, was identified as Enterococcus mundtii. BacST4SA, a bacteriocin produced by strain ST4SA inhibited the growth of Acinetobacter baumannii, Bacillus cereus, Clostridium tyrobutyricum, Enterococcus faecalis, Enterococcus faecium, Lactobacillus sakei, Propionibacterium spp., Streptococcus caprinus, Pediococcus sp., Listeria monocytogenes, Staphylococcus aureus, Streptococcus pneumoniae, and unidentified middle ear isolates A, BW, DW, F, G, and H. BacST4SA was active against Pseudomonas aeruginosa G, BG, I, J, B and E, although variable degrees of resistance were observed for some strains. BacST4SA is positively charged, hydrophobic, contains the YGNGV sequence in the N-terminal, a double-glycine processing site and a disulphide bridge, all of which is typical of a class IIa bacteriocin. The operon, which contains a structural-, ATP-dependent transporter- and immunity gene, is located on a 50-kb plasmid. The 58-amino acid prepeptide is homologous to mundticin KS, mundticin AT06 and bacteriocin QU 2, and differs from enterocin CRL35 by only two amino acids. The 674-amino acid ATP-dependent transporter, consisting of a peptidase C39B domain, an ABC-transporter and an ABC-DLP family domain, displayed 98.9% homology to mundticin KS and 99.25% to enterocin CRL35. The 98-amino acid immunity gene of bacST4SA is completely homologous to enterocin CRL35 and 96.9% to mundticin KS. BacST4SA is 3.950 kDa in size, based on electron spray mass spectrometry. The peptide was isolated from the cell-free supernatant, precipitated with 80% saturated ammonium sulphate, dialysed and freeze-dried to 1 638 400 AU (arbitrary units) per ml. No change in antimicrobial activity was recorded when bacST4SA was incubated in buffer ranging from pH 2 to 12, heated to 100 °C for 90 min and 121 °C for 20 min, and when incubated in the presence of Tween 20, Tween 80, Triton X-100, SDS, urea, EDTA, middle ear fluid and blood. Optimal levels of bacST4SA production (51 200 AU/ml) was recorded after 14 h of growth in MRS broth at 30°C. Maximum production (102 400 AU/ml) was recorded in modified MRS media supplemented with tryptone, yeast extract, a combination of tryptone and yeast extract, K2HPO4 (10.0 or 20.0 g/l), or with the addition of DL-6,8-thoictic acid, L-ascorbic acid, and thiamine, respectively. BacST4SA is bactericidal towards E. faecium HKLHS and bacteriostatic towards S. pneumoniae 40 and middle ear isolates F, BW and H. The peptide adsorbed maximal (94%) to S. pneumoniae 40, P. aeruginosa 25 and E. faecium HKLHS. BacST4SA forms pores in the cytoplasmic membrane of sensitive cells, leading to dissipation of the cell membrane and leakage of cytoplasmic material. BacST4SA was compared with various other antimicrobial treatment agents, and revealed similar to a higher activity towards a number of these agents. BacST4SA revealed a similar level of activity against E. faecium HKLHS and middle ear pathogens P. aeruginosa J and S. pneumoniae 27 when compared with tetracycline (30μg). However, bacST4SA revealed much higher activity when compared to nasal sprays, aminoglycosides, cephalosporins, fluoroquinolones, lincosamides, macrolides, nitroimidazole, penicillin, quinolones, sulfonamides, chloramphenicol, furanzolidone, fusidic acid, rifampicin, trimethoprim, trimethoprim-sulfamethoxazole and vancomycin when tested in vitro. / AFRIKAANSE OPSOMMING: Stam ST4SA, geïsoleer uit sojabone, is as Enterococcus mundtii geidentifiseer. BacST4SA, ‘n bakteriosien geproduseer deur stam ST4SA het die groei van Acinetobacter baumannii, Bacillus cereus, Clostridium tyrobutyricum, Enterococcus faecalis, Enterococcus faecium, Lactobacillus sakei, Propionibacterium spp., Streptococcus caprinus, Pediococcus sp., Listeria monocytogenes, Staphylococcus aureus, Streptococcus pneumoniae en ongeïdentifiseerde middeloor isolate A, BW, DW, F, G, en H geinhibeer. BacST4SA is aktief teen Pseudomonas aeruginosa stamme G, BG, I, J, B en E, alhoewel effense weerstand soms waargeneem is. BacST4SA het ‘n netto positiewe lading, is hidrofobies, bevat die YGNGV-volgorde in die N-terminaal, ‘n dubbel-glisien prosesserings setel en ‘n disulfied brug, kenmerkend van klas IIa bakteriosiene. Die operon, wat bestaan uit ‘n strukturele geen, ‘n ATP-afhanklike transport sisteem geen en ‘n immuniteits-geen, is op ‘n 50 kb plasmied gelokaliseer. Die voorloper peptied (58 aminosure lank), is homoloog aan mundticin KS, mundticin AT06 en bakteriosien QU 2 en verskil van enterocin CRL35 met slegs twee aminosure. Die ATP-afhanklike transporter (674 aminosure lank) bestaan uit ‘n peptidase C39B domein, ‘n ABC-transporter en ‘n ABC-DLP tipe domein en is 98.9% homoloog aan mundticin KS and 99.25% aan enterocin CRL35. Die immuniteits-geen (98 aminosure lank) van bacST4SA is ten volle homoloog aan enterocin CRL35 en 96.9% homoloog aan mundticin KS. BacST4SA is 3.950 kDa groot, gebaseer op elektrosproei-massa spektrometrie. Die peptied is uit selvrye supernatant geïsoleer, met 80% versadigde ammonium sulfaat gepresipiteer, gedialiseer en gevriesdroog tot ’n finale konsentrasie van 1 638 400 AE (arbitrêre eenhede) per ml. Geen verandering in antimikrobiese aktiwiteit is waargeneem tydens inkubasie van bacST4SA in buffer van pH 2 tot 12, tydens verhitting (100 °C vir 90 min en 121 °C vir 20 min) en tydens inkubasie in die teenwoordigheid van Tween 20, Tween 80, Triton X-100, SDS, ureum, EDTA, middeloor vloeistof en bloed. Optimale vlakke van bacST4SA produksie (51 200 AE/ml) is na 14 h groei in MRS media by 30°C waargeneem. Maksimale vlakke van die peptied (102 400 AE/ml) is geproduseer in gemodifiseerde MRS medium, aangevul met triptoon, gisekstrak, ‘n kombinasie van triptoon en gisekstrak, K2HPO4 (10.0 of 20.0 g/l), of met byvoeging van DL-6,8-thioktiensuur, L-askorbiensuur, en tiamien onderskeidelik. BacST4SA is bakteriosidies teenoor E. faecium HKLHS en bakteristaties teenoor S. pneumoniae 40 en middeloor isolate F, BW en H. Die peptied adsorbeer optimaal (94%) aan S. pneumoniae 40, P. aeruginosa 25 en E. faecium HKLHS. BacST4SA vorm porieë in die selmembraan van sensitiewe selle en lei tot vernietiging van die selmembraan en lekkasie van die sitoplasma inhoud. In vergelykende studies het bacST4SA ‘n soortgelyke en selfs hoër antimikrobiese aktiwiteit teenoor ‘n aantal bekende antimikrobiese middels getoon. Die aktiwiteit van bacST4SA is soortgelyk aan dié van tetrasiklien (30μg) in toetse teen E. faecium HKLHS en middeloor patogene P. aeruginosa J en S. pneumoniae 27. BacST4SA het egter in ’n in vitro vergelyking met neussproeie, aminoglisiedes, cephalosporiene, fluoroquinolone, lincosamides, makroliede, nitroimidazole, penisilien, quinolone, sulfonamide, chloramphenicol, furanzolidone, fusiensuur, rifampisien, trimethoprim, trimethoprim-sulfamethoxazool en vankomisien ‘n baie hoër aktiwiteit teen patogene getoon.

Thesis (PhD (Microbiology))--University of Stellenbosch, 2009. / Multidrug resistant strains of Staphylococcus aureus is presenting an increasing threat, especially immune compromised individuals. Many of these strains have developed resistance to newly approved drugs such as quinupristin-dalfopristin, linezolid and daptomycin. The search for alternative treatment, including bacteriocins (ribosomally synthesized antimicrobial peptides) of lactic acid bacteria is increasing . Lactococcus lactis subsp. lactis F10, isolated from freshwater catfish, produced a new nisin variant active against clinical strains of S. aureus. The operon encoding nisin F is located on a plasmid and the structural gene has been sequenced. The lantibiotic is closely related to nisin Z, except at position 30 where valine replaced isoleucine. The antimicrobial activity of nisin F against S. aureus was tested in the respiratory tract of Wistar rats. Non-immunosuppressed and immunosuppressed rats were intranasally infected with S. aureus K and then treated with either nisin F or sterile physiological saline. Nisin F protected immunosuppressed rats against S. aureus, as symptoms of an infection were only detected in the trachea and lungs of immunosuppressed rats treated with saline. The safety of intranasally administered nisin F was also evaluated and proved to have no adverse side effects. The potential of nisin F as an antimicrobial agent to treat subcutaneous skin infections was evaluated by infecting C57BL/6 mice with a bioluminescent strain of S. aureus (Xen 36). Immunosuppressed mice were treated with either nisin F or sterile physiological saline 24 h and 48 h after infection with subcutaneously injected S. aureus Xen 36. Histology and bioluminescence flux measurements revealed that nisin F was ineffective in the treatment of deep dermal staphylococcal infections. Non-infected and infected mice treated with nisin F had an influx of polymorphonuclear cells in the deep stroma of the skin tissue. This suggested that nisin F, when injected subcutaneously, may have modulated the immune system. Nisin F proved an effective antimicrobial agent against S. aureus-related infections in the respiratory tract, but not against subcutaneous infections. The outcome of nisin F treatment thus depends on the route of administration and site of infection.

Além das características tecnológicas das bactérias lácticas para o processamento de alimentos fermentados, novas propriedades são requeridas, como a produção de bacteriocinas. Vários desses compostos protéicos possuem atividade antimicrobiana direcionada à patógenos e apresentam potencial de uso como bioconservadores naturais de alimentos. O objetivo desse trabalho foi avaliar a viabilidade de aplicação de cinco culturas lácticas produtoras de bacteriocinas como bioconservantes em alimentos. Avaliaram-se as propriedades de segurança e probióticas dessas culturas e determinaram-se os parâmetros de produção e purificação parcial das bacteriocinas, bem como os efeitos de fatores limitantes de crescimento (cloreto de sódio e nitrito). Os resultados demonstraram que essas linhagens não possuem atividade de enzimas indicadoras de patogenicidade (termonuclease, -hemolisinas e gelatinases). A tolerância às condições ácidas variou dependendo da linhagem. Lactobacillus plantarum CTC 368 e Enterococcus avium CTC 469 apresentaram maior tolerância a valores de pH 2,0 e 3,0. Lactococcus lactis subsp. cremoris CTC 204 e Enterococcus avium CTC 483 também apresentaram 100% de sobrevivência a pH 3,0 e, mesmo com uma diminuição da tolerância a pH 2,0, a sobrevivência foi cerca de 80%. Com relação à susceptibilidade aos sais de bile, observou-se que a viabilidade variou entre as linhagens em função da concentração e tempo de incubação. Enterococcus avium CTC 469 e Lactococcus lactis subsp. hordinae CTC 484 foram as mais tolerantes e apresentaram sobrevivência de 57% e 58%, respectivamente. As linhagens mostraram excelente sobrevivência tanto a baixos valores de pH, quanto às concentrações de sais biliares indicando potencial probiótico. As características de crescimento e de produção de bacteriocinas foram semelhantes para todas as linhagens e meios avaliados. A viabilidade aumentou durante o período de incubação e a produção de bacteriocinas mostrou uma cinética de metabólito primário. A suplementação do meio MRS com 1,0% de NaCl e 0,1% de NaNO2, não afetou o crescimento de Lc. lactis subsp. cremoris CTC 204, mas promoveu a redução da atividade da bacteriocina de 42,5% e 17,5%, respectivamente. O crescimento de Lactococcus lactis subsp. hordinae CTC 484 foi afetado com a adição de NaCl e NaNO2 ao meio APT, mas ainda reteve 50% da atividade bacteriocigênica. O espectro de atividade das bacteriocinas variou de acordo com a susceptibilidade da linhagem indicadora, a concentração ou atividade da bacteriocina, a viabilidade e/ou presença das células produtoras e os procedimentos de extração das bacteriocinas. Os resultados revelaram que as bacteriocinas de Lactococcus lactis subsp. cremoris CTC 204 e Lactococcus. lactis subsp. hordinae CTC 484 promoveram um efeito bactericida contra Staphylococcus aureus. Concluiu-se que essas duas culturas produtoras de bacteriocinas apresentam propriedades para utilização como bioconservantes em alimentos e que estudos mais aprofundados, relacionados com a purificação da bacteriocina e avaliação de seu uso em alimentos, devem ser realizados. / In addition to the technological characteristics of lactic bacteria for the processing of fermented foods, other properties need to be developed and explored, such as bacteriocin production. Several of these protein-based compounds have antimicrobial activities targeted towards pathogens and have a significant potential for use as natural biopreservatives in processed foods. The objective of this study was to evaluate the viability of using five bacteriocin-producing lactic cultures as biopreservatives in foods. The safety and probiotic properties of these cultures were evaluated, followed by the determination of bacteriocin production and purification parameters and the effect of growth-limiting factors (sodium chloride and nitrite). The results demonstrated that these strains do not show activity of marker enzymes of pathogenicity (thermonuclease, - hemolysins and gelatinases). Tolerance to acidic conditions varied depending on the specific strain. Lactobacillus plantarum CTC 368 and Enterococcus avium CTC 469 exhibited greater tolerance to pH values 2,0 and 3,0. Lactococcus lactis subsp. cremoris CTC 204 and En. avium CTC 483 also presented 100% survival at pH 3,0, and even with reduced tolerance at pH 2,0, the survival rate was 80%. Variation in susceptibility to bile salts was observed between the strains as a function of concentration and incubation time. En. avium CTC 469 and Lactococcus lactis subsp. hordinae CTC 484 were found to be the most tolerant, exhibiting survival rates of 57% and 58%, respectively. The strains demonstrated excellent survival not only at low pH values, but also at high bile salt concentrations, thereby indicating probiotic potential. The growth and bacteriocin-producing characteristics were similar for all the strains and culture media evaluated. Bacterial multiplication increased during the incubation period, while bacteriocin production displayed primary metabolite kinetics. The activity spectrum of the bacteriocins varied with the susceptibility of the indicator strain, the concentration or activity of the bacteriocin, the viability and/or presence of bacteriocinproducing cells and the bacteriocin extraction procedures. The results reveal that the bacteriocins produced by Lc. lactis subsp. cremoris CTC 204 and Lc. lactis subsp. hordinae CTC 484 exerted a bactericidal effect against Staphylococcus aureus. Supplementation of the MRS medium with 1,0% NaCl and 0,1% NaNO2, did not affect the growth of Lc. lactis subsp. cremoris CTC 204, but did reduce by 42,5% and 17,5% the activity of the bacteriocin, respectively. Growth of Lc. lactis subsp. hordinae CTC 484 was affected by the addition of NaCl and NaNO2 to the APT medium, but even so still exerted 50% of its bacteriocinogenic activity. It was concluded that Lc. lactis subsp. cremoris CTC 204 and Lc. lactis subsp. hordinae CTC 484 exhibited adequate properties for use as biopreservatives in foods and that more extensive studies related to the purification of bacteriocins and assessment of their use in foods should be conducted.

Peptídeos antimicrobianos são vistos como alternativas promissoras a serem empregadas pela iindústria farmacêutica no controle de infecções causadas por microrganismos, como também na indústria alimentícia, onde podem desempenhar papéis como conservantes naturais de alimentos. Plantaricina149 é um membro deste grupo, sendo composto por 22 resíduos de aminoácidos, com natureza catiônica e atividade inibitória sobre algumas bactérias patogênicas. Neste trabalho, foram sintetizados diferentes peptídeos análogos à Plantaricina149 para investigar suas ações sobre microrganismos (bactérias e fungos), a fim de correlacionar estes estudos com a ação lítica do peptídeo em modelos de membrana diversos (monocamadas e vesículas fosfolipídicas). A interação de Plantaricina149 com estes sistemas foi monitorada pelas espectroscopias de dicroísmo circular e fluorescência, ensaios de tensão superficial, calorimetria e ressonância plasmônica de superfície, e mostrou ser altamente específica para superfícies fosfolipídicas que apresentam densidade de cargas negativas, tais como a membrana celular de bactérias. A interação eletrostática inicial que se estabelece entre o peptídeo e os fosfolipídios é de extrema importância, sendo capaz de induzir uma estruturação helicoidal na região C-terminal do peptídeo, enquanto a região Nterminal contribui com as interações hidrofóbicas necessárias para a penetração do peptídeo nas camadas fosfolipídicas levando a ruptura das mesmas. De forma semelhante, a atividade antimicrobiana de Plantaricina149a (e alguns de seus análogos) também mostrou ser resultado das interações das duas regiões da molécula, e foi afetada com a retirada ou modificação da região N-terminal do peptídeo. Com a deleção desta região, o peptídeo passou a ter somente ação bacteriostática sobre Staphylococcus aureus e Pseudomonas aeruginosa, perdendo a capacidade bactericida. / Antimicrobial peptides are seen as promising alternatives to be employed in pharmaceutical industry for controlling infections caused by microorganisms, and also in food industry, where they can play roles as natural food preservatives. Plantaricina149 is a member of this group, constituted of 22 amino acid residues, cationic in nature and presenting inhibitory activity against some pathogenic bacteria. In this work, different Plantaricina149 analog peptides were synthesized to investigate their action against microorganisms (bacteria and fungi), with the aim of correlating these studies with the lytic action of the peptide on several membrane models (phospholipid monolayers and vesicles). The Plantaricina149 interaction with these systems was monitored by circular dichroism and fluorescence spectroscopies, surface tension assays, calorimetry and surface plasmon resonance, and showed to be highly specific to phospholipid surfaces that present negative charge density, such as the bacteria cell membrane. The initial peptide-phospholipids electrostatic interaction is extremely important, and it is capable of inducing a helical structure in the peptide C-terminal region, while the Nterminal region contributes with the hydrophobic interactions needed to the peptide penetration in the phospholipid layers and to the disruption of them. Similarly, the Plantaricina149 antimicrobial activity has also proved to be a result of the interactions from the two regions of the molecule, and it was strongly affected by the removal or modification of the peptide N-terminal region. Promoting the deletion of this region has left the peptide only with a bacteriostatic action against Staphylococcus aureus and Pseudomonas aeruginosa, removing its bactericide ability.

Xylella fastidiosa é o agente causal de uma série de doenças que ocorrem em plantas economicamente importantes como laranjeiras, videiras e cafeeiros, causando no Estado de São Paulo prejuízos relevantes à indústria citrícola. Esta bactéria Gram-negativa é restrita ao xilema das plantas e à porção anterior do trato digestório dos insetos vetores das famílias Cicadellidae e Cercopidae, conhecidos como cigarrinhas. Tentativas de elucidar os mecanismos de virulência e patogenicidade adotados por esta bactéria apontam a formação do biofilme como etapa fundamental para o estabelecimento da infecção e o consequente desenvolvimento da doença na planta, mas fatores adicionais parecem contribuir, tais como a produção de toxinas. As bacteriocinas são proteínas com atividade antibiótica contra cepas próximas à espécie produtora e que já foram associadas à virulência e patogenicidade de outras bactérias. Uma varredura in silico no genoma de X. fastidiosa 9a5c revelou 13 sequências codificadoras de microcinas putativas no cromossomo. Transcritos de todos esses genes foram detectados por RT-qPCR em culturas de X. fastidiosa 9a5c, e análises comparativas com genomas públicos (cepas Temecula1, Dixon, Ann-1, M23, M12, EB92-1 e GB514) e recém sequenciados por nosso grupo de pesquisa (cepas U24d, J1a12, 3124, Hib4, Pr8x e Fb7) revelaram que cada cepa possui seu próprio arsenal de bacteriocinas. Diferenças encontradas in silico entre os loci de bacteriocinas nas cepas foram demonstradas experimentalmente. Nossos resultados comprovam a variabilidade predita nos quatro clusters de bacteriocinas que identificamos, o que é esperado para genes relacionados à adaptação e patogenicidade. Destes loci, três foram detectados por RT-PCR como transcritos policistrônicos. Nossa tentativa de detectar essas proteínas em culturas de X. fastidiosa (através de sequenciamento de polipeptídeos por HPLC-MS/MS) foi capaz de identificar uma das bacteriocinas putativas e, portanto, o conjunto de nossas observações apóia a continuidade dos estudos para elucidar o papel das bacteriocinas na fisiopatologia de X. fastidiosa. / Xylella fastidiosa is the causal agent of diseases that affect several economically important crops such as sweet orange trees, grapevines and coffee trees, causing in the State of São Paulo considerable losses mainly to the citrus industry. This Gram-negative bacterium is restricted to the plant xylem and to the upper gastrointestinal tract of its insect vectors, the sharpshooters from the Cicadellidae and Cercopidae families. Attempts to elucidate the virulence and pathogenicity pathways employed by this bacterium point the biofilm formation as a fundamental step for the establishment of the infection and the consequent development of the plant disease, but additional factors seem to contribute to these processes, such as the production of toxins. Bacteriocins are proteinaceous antibiotics that act against closely-related species and have been previously associated with virulence and pathogenicity in other bacteria. An in silico screening of the X. fastidiosa 9a5c genome revealed 13 coding sequences as putative microcins in the chromosome. Transcripts from all those genes were detected through RT-qPCR in X. fastidiosa 9a5c cultures, and comparative analyses on the public genomes (Temecula1, Dixon, Ann-1, M23, M12, EB92-1 and GB514) plus the ones recently sequenced by our group (U24d, J1a12, 3124, Hib4, Pr8x and Fb7) revealed that each strain possesses its own arsenal of bacteriocins. Differences found in silico among the loci in all strains were experimentally confirmed. Our results demonstrated the predicted variability in the four bacteriocins clusters as expected for adaptation and pathogenicity-related genes. Three out of the four bacteriocins loci were detected by RT-PCR as polycistronic transcripts. Our attempt to detect these proteins in X. fastidiosa cultures (using HPLC-MS/MS polypeptide sequencing) identified one of the putative bacteriocins, and therefore our observations warrant further efforts to elucidate the role of bacteriocins in the X. fastidiosa physiopathology.

O charque é um produto cárneo tipicamente brasileiro, salgado e seco ao sol, ainda produzido de maneira artesanal. Durante sua produção há uma etapa de fermentação, realizada pela microbiota naturalmente presente na matéria-prima, o que dificulta a padronização do produto, e pode influenciar negativamente em suas características sensoriais e qualidade microbiológica. O controle da etapa de fermentação do charque seria uma alternativa para minimizar este problema e, neste contexto, as bactérias láticas produtoras de bacteriocinas se enquadram de forma interessante. A microbiota autóctone de charque inclui principalmente bactérias láticas e micro-organismos halofílicos e halotolerantes, sendo assim, este produto apresenta potencial como fonte para o isolamento de novas bactérias láticas produtoras de bacteriocinas. Assim, este trabalho teve por objetivo isolar e identificar culturas de bactérias láticas produtoras de bacteriocinas naturalmente presentes no charque, caracterizar parcialmente as bacteriocinas produzidas por essas culturas, avaliar seu potencial de aplicação neste produto para a melhoria de sua qualidade microbiológica e avaliar seu efeito na ecologia microbiana do charque, nas diferentes etapas de sua fabricação. Através da técnica de tripla camada em ágar foi isolada uma cepa de Lactococcus lactis subsp. lactis apresentando o gene codificador para nisina Z e com capacidade de inibir, in vitro, micro-organismos medianamente e altamente halotolerantes isolados de charque, além de outros micro-organismos deteriorantes e patogênicos importantes em alimentos, como Lactobacillus spp., Listeria monocytogenes e Staphylococcus aureus. A bacteriocina produzida pela cepa isolada neste estudo também possui características interessantes para sua aplicação na bioconservação de alimentos, como resistencia ao calor, presença de agente químicos e altos teores de NaCl, além de não ser afetada pelo pH. A aplicação dessa cepa em charque modelo resultou na redução de até 2 ciclos log na população de micro-organismos halotolerantes, indicando apresentar um potencial de aplicação como agente de bioconservação do produto. Os ensaios de avaliação da ecologia microbiana, empregando DGGE, indicaram que a fermentação natural do charque ocorreu com a participação de bactérias láticas dos gêneros Lactobacillus, Streptococcus, Lactococcus e de micro-organismos halotolerantes do gênero Staphylococcus. Além disso, os estudos referentes à dinâmica populacional demonstraram que a adição da cepa bacteriocinogênica ao charque não influenciou, de forma qualitativa, as populações presentes no produto. / Charqui is a Brazilian traditional meat product, salted and sun-dried, still manufactured without control of the fermentation step, which is performed by the indigenous microbiota. This fact interferes on the standardization of the product and can negatively affect the sensorial properties and microbiological quality. The application of a known microbiota would be an alternative to minimize this problem and the bacteriocin-producing lactic acid bacteria can can fit in this purpose. The charqui indigenous microbiota mainly includes lactic acid bactéria and halophilic and halotolerant microorganisms, therefore, this product presents a potencial as a source for the isolation of new bacteriocin-producing lactic acid bacteria. The aim of the present work was to isolate and identify bacteriocin-producing lactic acid bacteria from charqui, characterize the bacteriocins produced by the isolated culture, evaluate its potential as biopreservative in charqui and its influence on the microbial populations during the manufacture of the product. A bacteriocinogenic Lactococcus lactis subsp. lactis strain was isolated from charqui through the triple-layer agar technique. This strain produces a nisin-like bacteriocin capable to inhibit in vitro medium and highly halotolerant bacteria isolated from charqui and other food-borne pathogenic and spoilage microorganisms. The application of this strain for charqui manufacturing caused a reduction of up to 2 log in the halotolerant bacteria population, evidencing its potential application for charqui biopreservation. Studies in the populational dynamics using DGGE indicated that the presence of the bacteriocinogenic strain did not affect the microbial populations in the product.

Além das características tecnológicas das bactérias lácticas para o processamento de alimentos fermentados, novas propriedades são requeridas, como a produção de bacteriocinas. Vários desses compostos protéicos possuem atividade antimicrobiana direcionada à patógenos e apresentam potencial de uso como bioconservadores naturais de alimentos. O objetivo desse trabalho foi avaliar a viabilidade de aplicação de cinco culturas lácticas produtoras de bacteriocinas como bioconservantes em alimentos. Avaliaram-se as propriedades de segurança e probióticas dessas culturas e determinaram-se os parâmetros de produção e purificação parcial das bacteriocinas, bem como os efeitos de fatores limitantes de crescimento (cloreto de sódio e nitrito). Os resultados demonstraram que essas linhagens não possuem atividade de enzimas indicadoras de patogenicidade (termonuclease, -hemolisinas e gelatinases). A tolerância às condições ácidas variou dependendo da linhagem. Lactobacillus plantarum CTC 368 e Enterococcus avium CTC 469 apresentaram maior tolerância a valores de pH 2,0 e 3,0. Lactococcus lactis subsp. cremoris CTC 204 e Enterococcus avium CTC 483 também apresentaram 100% de sobrevivência a pH 3,0 e, mesmo com uma diminuição da tolerância a pH 2,0, a sobrevivência foi cerca de 80%. Com relação à susceptibilidade aos sais de bile, observou-se que a viabilidade variou entre as linhagens em função da concentração e tempo de incubação. Enterococcus avium CTC 469 e Lactococcus lactis subsp. hordinae CTC 484 foram as mais tolerantes e apresentaram sobrevivência de 57% e 58%, respectivamente. As linhagens mostraram excelente sobrevivência tanto a baixos valores de pH, quanto às concentrações de sais biliares indicando potencial probiótico. As características de crescimento e de produção de bacteriocinas foram semelhantes para todas as linhagens e meios avaliados. A viabilidade aumentou durante o período de incubação e a produção de bacteriocinas mostrou uma cinética de metabólito primário. A suplementação do meio MRS com 1,0% de NaCl e 0,1% de NaNO2, não afetou o crescimento de Lc. lactis subsp. cremoris CTC 204, mas promoveu a redução da atividade da bacteriocina de 42,5% e 17,5%, respectivamente. O crescimento de Lactococcus lactis subsp. hordinae CTC 484 foi afetado com a adição de NaCl e NaNO2 ao meio APT, mas ainda reteve 50% da atividade bacteriocigênica. O espectro de atividade das bacteriocinas variou de acordo com a susceptibilidade da linhagem indicadora, a concentração ou atividade da bacteriocina, a viabilidade e/ou presença das células produtoras e os procedimentos de extração das bacteriocinas. Os resultados revelaram que as bacteriocinas de Lactococcus lactis subsp. cremoris CTC 204 e Lactococcus. lactis subsp. hordinae CTC 484 promoveram um efeito bactericida contra Staphylococcus aureus. Concluiu-se que essas duas culturas produtoras de bacteriocinas apresentam propriedades para utilização como bioconservantes em alimentos e que estudos mais aprofundados, relacionados com a purificação da bacteriocina e avaliação de seu uso em alimentos, devem ser realizados. / In addition to the technological characteristics of lactic bacteria for the processing of fermented foods, other properties need to be developed and explored, such as bacteriocin production. Several of these protein-based compounds have antimicrobial activities targeted towards pathogens and have a significant potential for use as natural biopreservatives in processed foods. The objective of this study was to evaluate the viability of using five bacteriocin-producing lactic cultures as biopreservatives in foods. The safety and probiotic properties of these cultures were evaluated, followed by the determination of bacteriocin production and purification parameters and the effect of growth-limiting factors (sodium chloride and nitrite). The results demonstrated that these strains do not show activity of marker enzymes of pathogenicity (thermonuclease, - hemolysins and gelatinases). Tolerance to acidic conditions varied depending on the specific strain. Lactobacillus plantarum CTC 368 and Enterococcus avium CTC 469 exhibited greater tolerance to pH values 2,0 and 3,0. Lactococcus lactis subsp. cremoris CTC 204 and En. avium CTC 483 also presented 100% survival at pH 3,0, and even with reduced tolerance at pH 2,0, the survival rate was 80%. Variation in susceptibility to bile salts was observed between the strains as a function of concentration and incubation time. En. avium CTC 469 and Lactococcus lactis subsp. hordinae CTC 484 were found to be the most tolerant, exhibiting survival rates of 57% and 58%, respectively. The strains demonstrated excellent survival not only at low pH values, but also at high bile salt concentrations, thereby indicating probiotic potential. The growth and bacteriocin-producing characteristics were similar for all the strains and culture media evaluated. Bacterial multiplication increased during the incubation period, while bacteriocin production displayed primary metabolite kinetics. The activity spectrum of the bacteriocins varied with the susceptibility of the indicator strain, the concentration or activity of the bacteriocin, the viability and/or presence of bacteriocinproducing cells and the bacteriocin extraction procedures. The results reveal that the bacteriocins produced by Lc. lactis subsp. cremoris CTC 204 and Lc. lactis subsp. hordinae CTC 484 exerted a bactericidal effect against Staphylococcus aureus. Supplementation of the MRS medium with 1,0% NaCl and 0,1% NaNO2, did not affect the growth of Lc. lactis subsp. cremoris CTC 204, but did reduce by 42,5% and 17,5% the activity of the bacteriocin, respectively. Growth of Lc. lactis subsp. hordinae CTC 484 was affected by the addition of NaCl and NaNO2 to the APT medium, but even so still exerted 50% of its bacteriocinogenic activity. It was concluded that Lc. lactis subsp. cremoris CTC 204 and Lc. lactis subsp. hordinae CTC 484 exhibited adequate properties for use as biopreservatives in foods and that more extensive studies related to the purification of bacteriocins and assessment of their use in foods should be conducted.

Diss. (sammanfattning) Uppsala : Sveriges lantbruksuniversitet, 2005. / Härtill 5 uppsatser.

Made available in DSpace on 2015-03-26T13:47:24Z (GMT). No. of bitstreams: 1 texto completo.pdf: 742482 bytes, checksum: 16c68ac95e43019b42c1b1b057afd7e3 (MD5) Previous issue date: 2014-02-20 / Coordenação de Aperfeiçoamento de Pessoal de Nível Superior / Because of the diversity of its indigenous microbiota, goat milk is considered a good source of new strains of lactic acid bacteria (LAB) with potential for exploitation as alternatives to food biopreservation. The increasing consumer demand for these alternatives justifies studies to investigate the antimicrobial potential of these microorganisms. The present study aimed to evaluate the genetic diversity and the antimicrobial action range of autochthonous strains of BAL isolated from goat milk that can be potentially used as biopreservatives in food. The bacteriocinogenic activity against Listeria monocytogenes and stability in different environmental conditions were also the target of this study. Fifty-seven isolates of BAL (33 isolates of Enterococcus spp., and 24 isolates of Lactococcus spp.), previously characterized as bacteriocinogenic by genotypic and phenotypic methods, were subjected to macrorestriction with SmaI and PFGE and their profiles were compared with the results of bacteriocinogenic genes previously searched. High genetic diversity was observed for both genders. Although PFGE showed sufficient discriminatory power, isolates with different results for bacteriocinogenic genes were grouped as identical in both genders. Twelve isolates from Lactococcus spp. and eighteen isolates of Enterococcus spp., representing different pulsotypes, were selected for evaluation of the antimicrobial activity range against 46 target microorganisms (including BAL, pathogens and spoilage microorganisms). Lactococcus strains showed a wide spectrum against the targets, especially against L. monocytogenes and Clostridium spp.. Enterococcus spp., similarly, was able to inhibit various targets, acting mainly against Listeria spp. Gram- negative microorganisms also showed sensitivity to isolates of both genders. Six isolates (four Enterococcus spp., and two Lactococcus spp.) were evaluated for bacteriocinogenic potential against L. monocytogenes strains from different serotypes and all of them were inhibited by bacteriocins produced by these LAB. Additionally, bacteriocins produced by these isolates showed a wide range of stability at different pH values and temperatures. The data showed that goat milk can contain a diverse microbiota able to inhibit microorganisms of interest to the food industry and can be potentially employed in biopreservation of foods produced at different processing conditions. / O leite de cabra, devido a diversidade de sua microbiota autóctone, é considerado uma boa fonte de novas cepas de Bactérias Ácido Láticas (BAL) com potencial para exploração como alternativas à biopreservação de alimentos. A crescente demanda dos consumidores por essas alternativas justifica estudos que investiguem o potencial antimicrobiano desses micro-organismos. O presente estudo teve como objetivo avaliar a diversidade genética e o espectro de ação de cepas de BAL antagonistas autóctones de leite de cabra que podem ser potencialmente utilizadas como biopreservantes em alimentos. A atividade bacteriocinogênica contra Listeria monocytogenes e estabilidade das bacteriocinas em diferentes condições ambientais também foram alvo deste trabalho. Cinquenta e sete isolados de BAL (33 isolados de Enterococcus spp. e 24 isolados de Lactococcus spp.), previamente caracterizados como bacteriocinogênicos por metodologias genotípicas e fenotípicas, foram submetidos à macrorrestrição com a enzima SmaI e PFGE e seus perfis foram comparados aos resultados de genes bacteriocinogênicos previamente pesquisados. Alta variabilidade genética foi observada para ambos os gêneros. Embora o PFGE tenha apresentado poder discriminatório suficiente, isolados com diferentes resultados para genes de bacteriocinas foram agrupados como idênticos em ambos os gêneros. Doze isolados de Lactococcus spp. e dezoito isolados de Enterococcus spp., representativos de diferentes pulsotipos, foram selecionados para avaliação do espectro de ação antimicrobiana contra 46 micro- organismos indicadores (incluindo BAL, micro-organismos deteriorantes e patógenos). Os isolados de Lactococcus spp. demonstraram amplo espectro de ação sobre os micro-organismos alvo, com destaque para a atividade contra os patógenos L. monocytogenes e Clostridium spp.. Enterococcus spp., de modo similar, foi capaz de inibir diversos micro-organismos alvo, apresentando atividade principalmente contra Listeria spp. Cepas Gram-negativas também apresentaram sensibilidade aos isolados de ambos os gêneros. Seis isolados (quatro Enterococcus spp. e dois Lactococcus spp.) foram avaliados quanto ao potencial bacteriocinogênico contra cepas de L. monocytogenes de diferentes sorotipos e todos os sorotipos foram inibidos pelas bacteriocinas produzidas pelas BAL. Adicionalmente, as bacteriocinas produzidas por estes isolados apresentaram ampla faixa de estabilidade em diferentes valores de pH e temperaturas. Os dados obtidos demonstraram que o leite de cabra pode conter uma microbiota bacteriocinogênica diversificada, capaz de inibir micro-organismos de interesse à indústria de alimentos, podendo ser potencialmente empregadas na bioconservação de alimentos produzidos em diferentes condições de processamento.