No description available.

No description available.

Diversity of the soil microbial community and its functional aspects were investigated in man-influenced environments, such as colliery spoil heaps in post mining sites and upland pasture used for outdoor cattle husbandry. The study was based on the cultivation of bacteria and streptomycetes as well as culture-independent approaches. Cultivated bacteria and streptomycetes were characterized by phenotypic and genotypic means. The culture-independent approaches were based on an analysis of environmental DNA in terms of both qualitative and quantitative parameters.

Made available in DSpace on 2016-06-02T18:57:19Z (GMT). No. of bitstreams: 1 2491.pdf: 971002 bytes, checksum: 1c30ad7bd5beabc3642c702b6b83f1b9 (MD5) Previous issue date: 2009-03-26 / The objective of this work was to evaluate the effect of fish hydrolysed in soil suppression against ginger yellow caused by Fusarium oxysporum f. sp. zingiberi, in a property in Tapirai, SP with no use of fungicides. Fish hydrolysed was applied directly in the soil at 0, 500, 1000, 2000 e 4000 l/ha in two different periods. The development and productivity of plants, microbial soil activity (carbon of microbial biomass, respiration, hydrolise of fluorescein diacetate, and fungi and bacteria populations) and disease incidence was evaluated 10, 70, 140, 190, and 240 days after the first application, except productivity. There were no effects of fish hydrolyzed on plant development, yield, and microbiological activity. On the other hand, it was observed a reduction in the incidence of Fusarium, when the fungus was isolated from rhizomes in petri dish and selective media. The price reduction of ginger in the local market at the last two year and the increase of disease incidence, associated with the cost of control, led the growers to a severe reduction of capitalization and disappointment with the future of the agriculture in the region. / O objetivo do presente estudo foi avaliar o potencial do hidrolisado de peixe em induzir a supressividade do solo ao amarelo do gengibre, causado por Fusarium oxysporum f. sp. zingiberi, em uma propriedade localizada no município de Tapiraí, SP, onde o cultivo é realizado sem o uso de fungicidas. Para tanto, foram aplicados ao solo 0, 500, 1000, 2000 e 4000 l/ha do hidrolisado de peixe, em duas épocas, sendo avaliado o desenvolvimento e a produtividade das plantas, a atividade microbiana do solo (carbono da biomassa microbiana; respiração; hidrólise de diacetato de fluoresceina e comunidade de fungos e bactérias) e a incidência da doença, com exceção da produtividade, as demais avaliações foram realizadas após 10, 70, 140, 190 e 240 dias da primeira aplicação do produto. Não houve efeito do hidrolisado de peixe no desenvolvimento, produtividade e qualidade do gengibre, nem na atividade microbiana do solo. Por outro lado, foi observada uma redução na recuperação de Fusarium dos rizomas do gengibre, quando do plaqueamento em meio de cultura seletivo. O preço do gengibre nos últimos dois anos e o aumento da incidência da doença, bem como o custo de controle, levou os agricultores à descapitalização e descrédito quanto ao futuro da cultura/atividade agrícola na região.

Les processus microbiens ont une importance déterminante dans la dynamique des processus réactifs dans les eaux souterraines. La compréhension de la variabilité spatiale et temporelle de ces phénomènes, et le développement de méthodes expérimentales de terrain, ouvrent de nouveaux champs de recherches et d'applications allant de la remédiation des aquifères contaminés à la compréhension des grands cycles biogéochimiques naturels. Dans le premier volet de cette thèse nous présentons des observations de terrain permettant de comprendre le rôle des fractures sur la formation d'un ''hotspot'' d'activité microbienne en profondeur. Du fait de leur forte réactivité, ces ''hotspots'' peuvent dominer la dynamique biogéochimique des milieux souterrains, malgré leur faible extension spatiale. Nous avons ainsi analyser les conditions de formation d'un tapis microbien par des bactéries ferro-oxydantes à 60 mètres de profondeur sur l'observatoire de Ploemeur (réseau H+) alors que ces phénomènes ont été observé jusqu'à présent en surface. Les résultats de cette étude montrent que des circulations hétérogènes, liées à la structure des milieux fracturés, créent des zones mélanges entre des eaux riches en fer et des eaux oxygénées, à l'origine de ce hotspot microbien. Le deuxième volet de ce travail de thèse a été consacré au développement d'une méthode innovante pour la mesure en continu de l'activité microbienne dans les eaux souterraines. La méthode est basée sur l'utilisation de la Fluoréscéine DiAcétate (FDA) dont le produit de réaction peut être mesuré en continu par un fluorimètre de terrain. Après avoir testé et validé les protocoles sur des solutions enzymatiques et des eaux naturelles en laboratoire, nous avons mis en œuvre cette technique sur le terrain au cours d'expériences de traçages réactifs. Un modèle cinétique nous a permis d'approcher les résultats obtenus en laboratoire, et de comparer nos résultats de terrain aux calibrations effectuées in vitro. Cette méthode ouvre ainsi de nouvelles perspectives pour la caractérisation des processus biogéochimiques sur le terrain. / Microbial processes play a key role in controlling biogeochemical reactivity in groundwater. The understanding of the spatial and temporal variability of these phenomena and the development of novel experimental field methods, has opened new fields of research and applications, ranging from groundwater remediation to understanding of global biochemical cycles. In the first part of this thesis, we present field observations providing new insights on the role of fractures in the formation of a hotspot of microbial activity. Because of their large reactivity, these hotspots can dominate the biogeochemical dynamics of subsurface systems, despite their small spatial extent. We have thus analyzed the conditions for the formation of a microbial mat composed of iron-oxidizing bacteria at 60 meters depth in the Ploemeur fractured rock observatory (H+ network) while these phenomena are usually observed at the surface. These results show that heterogeneous flowpaths, linked to the structure of fractured media, create mixing zones between iron rich water and oxygen rich water, at the origin of the microbial hotspot. The second part of this work was devoted to the development of a novel method for a continuous measurement of microbial activity in groundwater. The method is based on the use of Fluorescein DiAcetate (FDA) whose product of reaction can be measured continuously by a field fluorimeter. After testing and validating protocols in the lab on enzymatic solutions and natural water, we have implemented this technic in the field in reactive tracer test experiments. A kinetic model allowed us to interpret the lab results, and to compare them to the field kinetics. This method thus opens new perspectives for the characterization of biogeochemical processes in the field.

Im Rahmen dieser Arbeit wurden verschiedene zweiphasige Vergärungssysteme hinsichtlich der mikrobiellen Biomasse und Abbauaktivität charakterisiert, mit dem Ziel, eine mikrobiologische Prozessüberwachung zu ermöglichen. Bei der analytischen Begleitung des Biogasprozesses stellte sich heraus, dass viele Biomasse- und Aktivitätsparameter anlagen- bzw. substratspezifische Werte aufweisen und Prozessstörungen bzw. Verfahrensmodifikationen über diese mikrobiologischen Kenngrößen detektiert und verifiziert werden können. Im Normalbetrieb der Vergärung von Maissilage konnte in der Hydrolysestufe eine starke Vermehrung der mikrobiellen Gesamtzellzahl sowie eine Zunahme des Archaea:Bacteria-Verhältnisses verzeichnet werden. Die Aktivitätsprofile von Hydrolasen (unspezifische Esterase, Polysaccharasen und Proteasen) erlaubten eine Visualisierung des Hydrolysefortschritts. Hierbei erwiesen sich die Esterase-, Cellulase- und Xylanaseaktivität als besonders aussagekräftig. Ähnlich ermöglichte dies die Analyse der Atmungsaktivität, die die mikrobielle Abbauaktivität des Eingangs- bzw. das Restgaspotential des Ausgangsmaterials der Hydrolysestufe wiedergibt. Die phylogenetischen Analysen der ersten Prozessstufe zeigten eine klare Dominanz von cellulolytischen Bakterien der Gattung Clostridium (Ø 35%). Der Anteil der hydrogenotrophen Methanogenen lag in den untersuchten Systemen etwa 50% über dem der Acetoklastischen, was darauf schließen lässt, dass der hydrogenotrophe Methanbildungsweg favorisiert wird. Es wurde aber auch eine erhöhte Abundanz der nicht-methanogenen Crenarchaeota festgestellt, deren Rolle im Biogasprozess noch ungeklärt ist. Im Zuge dieser Arbeit wurde weiterhin die Vergärbarkeit von HCH-belasteter Grassilage bzw. ein potentieller mikrobieller β-HCH-Abbau untersucht. Hier konnte gezeigt werden, dass die Aktivität der Mikroorganismen durch die Schadstoffbelastung des Substrates nicht inhibiert war. Darüber hinaus konnte ein Abbau des β-HCH nach der Hydrolyse der Grassilage nachgewiesen werden. Durch das Auftreten von Prozessstörungen bzw. Verfahrensmodifikationen konnten die Auswirkungen auf die untersuchten mikrobiologischen Kenngrößen näher untersucht und u. a. auch statistisch abgesichert verifiziert werden. Korrelationsanalysen verdeutlichten die mikrobiellen bzw. biochemischen Zusammenhänge im System. Besonders interessant sind dabei die signifikanten Korrelationen zwischen der Gesamtzellzahl, der Esteraseaktivität und dem Chemischen Sauerstoffbedarf, die für jede Verfahrensstufe nachgewiesen werden konnten. Diese Analysen zeigten erstmalig, dass die unspezifische Esteraseaktivität als allgemeiner mikrobieller Aktivitätsparameter in verschiedenen Prozessstufen von Biogasanlagen als Indikator zur Prozesseffizienz und -stabilität einsetzbar ist. Daher wurde die Methodik als Schnelltest weiterentwickelt, der auch vor Ort Anwendung finden kann. Dies ermöglicht eine direkte Analyse des Biogassubstrates, der Effizienz der Substratumsetzung sowie die Detektion von Störungen und eine entsprechende Steuerung und Regelung des Prozesses.

<p>Microbes play key roles in processes that shape the world around us having direct impact in crop  production,  food  safety,  digestion,  and  overall  health.  Developing  tools  to  monitor  their activity in-situ is the key towards better understanding the true impact of microbial activity in these processes and, eventually, harnessing their potential. Many conventional techniques for microbial activity assessment require sample collection, expensive benchtop equipment, skilled technicians, and   destructive   sample   processing   which   makes   their   adaptation   for   in-situ   monitoring cumbersome. The need for technologies for in-situ monitoring has led to the development of many sensordesigns,  capable  of  detecting  single  strains  of  bacteria  to  low  limits  of  detection  (LOD). These designs, however, are limited to their complex manufacturing procedures, cost, and delicacy which makes them difficult to implement outside of a laboratory setting into harsh environments.</p> <p>In  the  last  25  years,  impedimetric  sensing  methods  have  been used  as  powerful  analytical tools  to  characterize  the  degradation  and  dissolution  of  polymers.  Known  for  their  robustness, these techniqueswere mainly used for characterizing polymer’s properties as corrosion-protective layers on metals. At the time, someresearchers pondered onthe potential use of this technique for biosensing  applications.In  this  thesis,  the  ability  of  monitoring  microbial  activity  in-situ  was explored by  integratingdifferent  bioresponsive  polymers  with  low-cost electronic  impedimetricplatformsand assessing their degradation kinetics in response to microbes</p> <p>This  novel  use  of  impedimetric  sensing  methods  and  approach  towards  microbial  activity sensing was systematically studied in different  areas including  agriculture, food packaging, and healthcare.  Microbes,  the  good,  the  bad,  and  the  ugly,  were  studied  within  their  ecosystems  to demonstrate  the  ability  of  using  the  described  systems  in  in-situ  monitoring.  In  agriculture, polymer  degradation  was  successfully  correlated  to  the  concentration  of  decomposing  bacteria directly in soil. In food packaging, spoilage of chicken samples was successfully detected within their package through a non-reversible system. In healthcare, a wireless and electronic-free wound monitoring  system  capable of  detecting  early  onset  of  infection  while  delivering  therapeutics without the need of external actuation was achieved. Further developments of this technology will present the key towards monitoring microbial activity in-situ in a large scale, providing solutions to  humanity’s  toughest  upcoming  challenges  including  food  production,  food  safety,  and healthcare.</p>

No description available.

In the state of Sergipe, more precisely in the center-south region of the Coastal Plains serves as the stage for one of the largest citrus production in the country. The intensive cultivation of these soils reduces the content of organic matter that is the key component to ensure its quality. Thus, the use of alternate layering residues format, can be a viable alternative to the revitalization of citrus orchards. The objective of this study was the evaluation of the labile and stable soil organic matter, carbon management index and microbial activity in soil treated with organic waste and citrus cultivation in the state of Sergipe. Soil samples were collected in the layers 0-5 cm, 5-10 cm, and 10-15 cm in a citrus (Citrus sinensis, L. Osbeck) orchard treated either with organic residues or mineral fertilizer, or a combination of the two (conventional management, where the projection of the plant canopy was kept clean of weeds, and no mineral fertilization; humus residues; alternate layering residues (in situ made compost); alternate layering residues + NPK; only NPK; humus residues + NPK; and a native forest soil as reference). The results were submitted to analysis of variance and means were compared by the Scott-Knott test at 5% probability by the software SISVAR. To evaluate the microbial activity was also determined the coefficient of correlation (p . 5) via the computer application SAEG. The study of C in the labile and stable organic matter were more effective than isolated evaluation of total organic carbon (TOC) to check for changes in the dynamics of C in the soil. The C in particulate organic matter (C-POM) was more sensitive than the content of C in complexed organic matter (C-COM). Overall, the treatments that have provided incorporation of organic residues showed carbon management index (CMI) close to the native forest. The fulvic acids fraction (FAF) helped identify the changes in soil for different types of management. The humin fraction (HUMF) showed the highest levels of C relative to FAF and humic acids fraction (HAF). The incorporation of organic waste to the crowning of the orange zone also caused an increase in microbial respiration rates, in total content of organic matter, as well as the elevation of pH, P, Ca and Mg treatments when compared to native forest and conventional management. The ratio stratification was effective to evaluate the influence of different management practices between depths indicating treatments Humus, Humus + NPK and altenate layering residues + NPK as the most effective in increasing the organic matter content in the soil. The benefits caused to soil after the incorporation of organic waste show that the use of practices more conservationist contributes to the improvement of the soil. / No estado de Sergipe, mais precisamente no centro-sul, a regiao de Tabuleiros Costeiros serve de palco para uma das maiores producoes citricolas do pais. O cultivo intensivo feito de forma inadequada nesses solos reduz o teor de materia organica que e o componente fundamental para assegurar a sua qualidade. Dessa forma, o aproveitamento dos residuos organicos no formato de compostagem laminar, pode ser uma alternativa viavel para a revitalizacao de pomares citricolas. O objetivo do presente trabalho foi a avaliacao das fracoes labeis e estaveis da materia organica do solo, do indice de manejo do carbono e da atividade microbiana em solo tratado com residuos organicos e cultivado com citros no estado de Sergipe. Foram coletadas amostras de solo em tres profundidades (0-5, 5-10 e 10-15 cm) em area cultivada com laranja pera (Citrus sinensis, L. Osbeck) sob diferentes tratamentos (manejo convencional onde a area sob a copa da planta e mantida limpa e sem aplicacao de fertilizantes; humus, aplicado sob a copa da planta; compostagem laminar, com residuos organicos como restos culturais e estercos dispostos em camadas alternadas sob a copa da planta; compostagem laminar + NPK; NPK; humus + NPK; o mesmo solo sob mata nativa foi usado como referencia). Os resultados foram submetidos a analise de variancia e as medias foram comparadas pelo teste de Scott-Knott a 5% de probabilidade por meio do software SISVAR. Para avaliacao da atividade microbiana tambem foi determinado o coeficiente de correlacao de Pearson (p.5) atraves do aplicativo computacional SAEG. O estudo do C nas fracoes labeis e estaveis da materia organica foram mais eficazes do que avaliacao isolada do carbono organico total (COT) para verificar alteracoes na dinamica do C no solo. O C da materia organica particulada (CMOP) se mostrou mais sensivel do que o teor de C na materia organica complexada (CMOC). No geral, os tratamentos que tiveram incorporacao de residuos organicos proporcionaram indices de manejo de carbono (IMC) proximos ao da mata nativa. A fracao acidos fulvicos (FAF) ajudou a identificar as mudancas ocorridas no solo em funcao dos diferentes tipos de manejo. A fracao humina (FHUM) apresentou os maiores teores de C em relacao a FAF e a fracao acidos humicos (FAH). A incorporacao de residuos organicos a zona de coroamento da laranjeira tambem promoveu um aumento das taxas de respiracao microbiana, nos teores totais de materia organica, assim como, a elevacao de pH, P, Ca e Mg dos tratamentos quando comparados a mata nativa e ao manejo convencional. A relacao de estratificacao mostrou-se eficaz ao avaliar a influencia das diferentes praticas de manejo entre as profundidades indicando os tratamentos Humus, Humus + NPK e compostagem laminar + NPK como os mais eficazes em aumentar o teor de materia organica no solo. Os beneficios ocasionados ao solo, apos a incorporacao de residuos organicos demonstram que a utilizacao de praticas mais conservacionistas contribui em muito para a melhoria do solo.