Early Mortality Syndrome (EMS) is a widespread bacterial infection of shrimp, attributed to pathogenic Vibrio parahaemolyticus strains (VP-EMS). This disease threatens aquaculture production and global food security. A valuable and alternative approach to using antibiotics for pathogen control, is the practice of incorporating direct-fed microbes (DFM) or probiotics. In order to evaluate the hypothesis that probiotics (specific strains of Bacillus subtilis spores) are able to provide shrimp, Litopenaeus vannamei, protection to the EMS disease, a pathogen growth model, disease challenge model, and probiotic feed coating methodologies were developed and refined, allowing independent shrimp probiotic trials to be piloted. A single probiotic strain of Bacillus subtilis: O14VRQ and a blend of Bacillus subtilis strains: Plus10, were evaluated as feed additives or as water additions, for their efficacy. Accordingly, two independent trials were conducted in which shrimp were fed daily with a probiotic-coated feed for seven days, before a challenge with VP-EMS. Each trial consisted of a negative control (no VP-EMS exposure, no probiotic) and positive control (VP-EMS exposure, no probiotic), with five additional probiotic treatment groups, which were fed and exposed to VP-EMS in the same manner as the positive control. Shrimp were observed for clinical signs of disease after the initial exposure and were continuously exposed every 24 hours until 50% of the population remained in the positive control treatment. Both probiotics studied were shown to significantly (p < 0.05) improve shrimp survival. Overall the data presented in this work demonstrates that probiotic prophylaxis is reliant upon probiotic dose, regardless of application. / Master of Science in Life Sciences / Aquaculture is one of the fastest growing agricultural sectors in the world allowing it to greatly contribute to global food security. Seafood products are known for their excellent health benefits, providing good sources of protein, fatty acids, and vitamins. However, the animals raised in this industry, like in many facets of animal agriculture, are susceptible to disease. Diseases can be costly to treat and if no treatment exists, can be detrimental to farms, especially to highly valued species such as shrimp. Traditionally, many diseases have been treated with antibiotics, however this can promote the growth of antibiotic resistant bacteria, which is a public health concern especially when involving animals fit for human consumption. An alternative to this approach is administering probiotics or beneficial bacteria to these animals. When incorporated with feed or applied to water, these beneficial bacteria can prevent diseases and help promote the growth of healthy animals. Two novel probiotics were fed to shrimp, before exposing them to the bacteria, Vibrio parahaemolyticus, which causes Early Mortality Syndrome, and is responsible for annual shrimp losses of more than $1 billion USD. Signs of this disease and survival were observed to assess if this probiotic could provide protection against this bacterium. Results from these studies show that these probiotics were capable of offering protection to shrimp when they were fed or introduced into tank water in high concentrations. Such probiotic applications could have beneficial effects on intensive shrimp aquaculture and help prevent this disease.

The mechanism of gene regulation used by Gram-negative bacteria during quorum sensing is well understood in the bioluminescent marine bacterium Vibrio fischeri. The cell-density dependent activation of the luminescence (lux) genes of V. fischeri relies on the formation of a complex between the autoinducer molecule, N-(3-oxohexanoyl) homoserine lactone, and the autoinducer-dependent transcriptional activator LuxR. LuxR, a 250 amino acid polypeptide, binds to a site known as the lux box centered at position -42.5 relative to the luxI transcriptional start site. During transcriptional activation of the lux operon, LuxR is thought to function as an ambidextrous activator capable of making multiple contacts with RNA polymerase (RNAP). The specific role of region 4 of the Escherichia coli sigma 70 subunit of RNAP in LuxR-dependent transcriptional activation of the luxI promoter has been investigated. Rich in basic amino acids, this conserved portion of sigma 70 is likely to be surface-exposed and available to interact with transcription factors bound near the -35 element. The effect of 16 single and 2 triple alanine substitution variants of sigma 70 between amino acid residues 590 and 613, was determined in vivo by measuring the rate of transcription from a luxI-lacZ translational fusion via b-galactosidase assays in recombinant E. coli. In vitro work was performed with LuxRDN, the autoinducer-independent C-terminal domain (amino acids 157 to 250) of LuxR because purified, full length LuxR is unavailable. Single-round transcription assays were performed in the presence of LuxRDN and 19 variant RNAPs, one of which contained a C-terminally truncated sigma 70 subunit devoid of region 4. Results indicate that region 4 is essential for LuxRDN-dependent luxI transcription with two specific amino acid residues, E591 and K597, having negative effects on the rate of LuxRDN-dependent luxI transcription in vivo and in vitro. None of the residues tested were identified as having any effect on LuxR-dependent luxI transcription in vivo. These findings suggest that region 4.2 is most likely to be in close proximity to LuxR when bound to the luxI promoter. However, unlike the situation found for other ambidextrous activators, no single residue within region 4.2 of sigma 70 may be critical by itself for LuxR-dependent during transcriptional activation. / Master of Science

Cobia (Rachycentron canadum) is a tropical marine fish, with increasing commercial aquaculture importance worldwide. One of the major limitations to intensive aquaculture is disease. Diseases spread rapidly in an aquatic environment and pose a major threat to the development and introduction of new species, such as cobia, in aquaculture. This is due to the necessity to use wild caught broodstock, which pose a greater threat to introducing disease to a facility. Bacteria of the genus Vibrio play a major role in the diseases of cultured cobia and other species of marine fish. The goal of this study is to reduce the incidence of disease in a population, by either eliminating the potential pathogen or increasing the resistance of the host. To reach that goal, a disinfection assay to evaluate the effectiveness of nine common aquaculture chemical disinfecting compounds was evaluated against two bacterial pathogens (Vibrio anguillarum and V. ordalii). Both bacterial species were susceptible to a variety of common disinfecting compounds including Chloramine-T®, chlorine, ethanol, iodine, Lysol®, Roccal®-D Plus, and Virkon-S®. In addition, both species showed a resistance to disinfection with formalin and tap water. The humoral immune response of cobia to vaccination with a commercially-available vaccine for Vibrio spp. was evaluated by an ELISA. There was a significant difference between control and vaccinated groups (P<0.0001), showing significant antibody production resulting from vaccination. / Master of Science

<I>Vibrio fischeri</I>, a symbiotic bioluminescent bacterium, serves as one of the best understood model systems for a mechanism of cell-density dependent bacterial gene regulation known as quorum sensing. During quorum sensing in <I>V. fischeri</I>, an acylated homoserine chemical signal (autoinducer) is synthesized by the bacteria and used to sense their own species in a given environment. As the autoinducer levels rise, complexes form between the autoinducer and the N-terminal domain of a regulatory protein, LuxR. In response to autoinducer binding, LuxR is believed to undergo a conformational change that allows the C-terminal domain to activate transcription of the luminescence or <I>lux</I> operon. To further understand the mechanism of LuxR-dependent transcriptional activation of the <I>lux</I> operon, PCR-based site-directed mutagenesis procedures have been used to generate alanine-substitution mutants in the C-terminal forty-one amino acid residues of LuxR, a region that has been hypothesized to play a critical role in the activation process. An <I>in vivo</I> luminescence assay was first used to test the effects of the mutations on LuxR-dependent activation of the <I>lux</I> operon in recombinant <I>Escherichia coli</I>. Luciferase levels present in cell extracts obtained from these strains were also quantified and found to correlate with the luminescence results. Eight strains encoding altered forms of LuxR exhibited a "dark" phenotype with luminescence output less than 50% and luciferase levels less than 50% of the wildtype control strain. Western immunoblotting analysis with cell extracts from the luminescence and luciferase assays verified that the altered forms of LuxR were expressed at levels approximately equal to wildtype. Therefor, Low luminescence and luciferase levels could be the result of a mutation that either affects the ability of LuxR to recognize and bind its DNA target (the <I>lux</I> box) or to establish associations with RNA polymerase (RNAP) at the <I>lux</I> operon promoter necessary for transcriptional initiation. A third <I>in vivo </I>assay was used to test the ability of the altered forms of LuxR to bind to the <I>lux</I> box (DNA binding assay/repression). All of the LuxR variants exhibiting the "dark" phenotype in the luminescence and luciferase assay were also found to be unable to bind to the <I>lux</I> box in the<I> </I>DNA binding assay. Therefore, it can be concluded that the alanine substitutions made at these positions affect the ability of LuxR to bind to the <I>lux</I> box in the presence and absence of RNA polymerase. Another class of mutants exhibited wildtype phenotypes in the luminescence and luciferase assays but were unable to bind to the <I>lux</I> box in the DNA binding assay. The alanine substitutions made at these amino acid residues may be making contacts with RNAP that are important for maintaining the stability of the DNA binding region of LuxR. Alanine substitutions made at these positions have a defect in DNA binding at the promoter of the <I>lux</I> operon only in the absence of RNAP. None of the alanine substitutions made in the C-terminal forty-one amino acids of LuxR were found to affect activation of transcription of the <I>lux</I> operon without also affecting DNA binding. Taken together, these results support the conclusion that the C-terminal forty-one amino acids of LuxR are important for DNA recognition and binding of the <I>lux</I> box rather than positive control of the process of transcription initiation. / Master of Science

Depuis une quinzaine d’années, des mortalités estivales d’ormeaux européens, Haliotis tuberculata, surviennent sur le littoral breton et normand, et en structures aquacoles. Ces mortalités sont attribuées à l’espèce bactérienne Vibrio harveyi, et se produisent chez des ormeaux sexuellement matures lorsque la température de l’eau dépasse 17°C.Ce travail de thèse visait en une approche multifactorielle de l’étude de cette interaction hôte-parasite, afin de spécifier les conditions intrinsèques aux ormeaux dans le déclenchement de cette vibriose, le cycle infectieux de V. harveyi chez l’ormeau européen et le rôle de la température dans l’accomplissement de ce cycle infectieux, et enfin la réponse physiologique de l’ormeau lors d’une exposition à V. harveyi.Les principaux résultats montrent un différentiel d’expression génomique entre des ormeaux résistants et des ormeaux sensibles au cours d’une exposition à V. harveyi, attestant ainsi l’importance du statut physiologique de l’hôte dans la survie à la vibriose chez l’ormeau européen. Ce constat est supplémenté de la mise en évidence de sensibilité à cette maladie chez des ormeaux sexuellement immatures, habituellement résistants, acclimatés à 19°C et exposés à des conditions contraignantes de type manipulation. Par ailleurs, l’étude de la voie d’entrée et de la dynamique d’infection de V. harveyi chez l’ormeau européen a révélé un tropisme particulier de ce vibrion pathogène vers les tissus branchiaux dès les premières heures de contact, et son invasion dans le système circulatoire dès 24h de contact. L’étude de la réponse hémocytaire des ormeaux et du métabolisme branchial, à l’échelle moléculaire et cellulaire, lors des premières heures de contact, démontre 1/ la genèse d’un stress oxydatif au niveau des branchies d’ormeaux sensibles à la vibriose et 2/ une altération du fonctionnement des hémocytes, ce qui présume de l’une des stratégies majeures de virulence de V. harveyi. / For fifteen years, summer mortalities have been observed in wild and farmed populations of European abalone, Haliotis tuberculata, along the north French coast. These mortalities are attributed to the bacterial species Vibrio harveyi and occur in sexually mature animals, when the seawater temperature exceeds 17°C.A multifactorial approach to the study of this host-parasite interaction was done during this thesis, in order to specify the intrinsic abalone conditions in vibriosis mortalities, the infectious cycle of V. harveyi in European abalone and the role of temperature in the fulfillment of this infectious cycle, and finally the physiological response of abalone, at cellular and molecular level, when exposed to V. harveyi.The main results showed a differential gene expression between resistant and susceptible abalone during exposure to V. harveyi, indicating the importance of the physiological status of the host, in survival to vibriosis. This hypothesis is supplemented by the susceptibility of sexually immature abalone at 19°C to this disease, usually resistant, and exposed to manipulation stressor. Moreover, the study of the portal of entry and the dynamics of infection by V. harveyi in European abalone revealed a particular tropism of this vibrio pathogen for gill tissues, in the earlier hours of contact, and its invasion into the circulatory system from the first 24 hours of contact. The study of the response of abalone hemocyte and gill metabolism, at the cellular and molecular level, in the earlier hours of contact, shows 1/ a genesis of oxidative stress in gills of susceptible abalone, and 2/ an alteration of hemocyte functions, which may constitute one of the major strategies of virulence in V. harveyi.

Made available in DSpace on 2015-03-04T18:51:21Z (GMT). No. of bitstreams: 1 Antonio Neto.pdf: 2082167 bytes, checksum: f56cf900db766b4f223ae0ad59348aa7 (MD5) Previous issue date: 2010-03-11 / Coordenacao de Aperfeicoamento de Pessoal de Nivel Superior / Large scale gene expression analysis has fundamental importance for understanding cellular function and gene regulation mechanics. It enables the measurement of expression levels of thousands of genes simultaneously, and makes possible a wider understanding of the biological system. Among the main experimental techniques available for this purpose, microarray technology has been widely used. The objective of this work was to determine the genes of Vibrio parahaemolyticus which have their expression induced or repressed in presence of amino-sugars N-acetylglucosamine (NAG). V. parahaemolyticus is a marine bacterium, commonly found in water and in association with marine organisms. NAG is one of the most abundant amino sugars in the marine environment. For this, V. parahaemolyticus RIMD2210633, was cultivated in two media as sources of energy. The first medium consists of maltose and NAG (control) and the second only by NAG (treatment). Bacterial culture was done under aerobic conditions and low agitation at 28°C. Two samples were drawn from the medium 24 hours after the experiment beginning in order to perform the extraction of mRNA and preparation of cDNA. Three replicas of the experiments were made. Mixtures of cDNA prepared from RNA extracted from each replicate were used in hybridizations in microarray slides containing a total of 4832 ORFS from the V. parahaemolyticus RIMD2210633 genome. Comparative analysis of gene expression of V. parahaemolyticus in two culture conditions resulted in detection of 59 genes with expression induced, 38 repressed genes, and 4245 without modified expression (increased or decreased) in presence of NAG. In total, 523 genes were excluded from this comparison because the hybridization was unsatisfactory. There was a gene ordination following the functional classification of the database TIGR-CMR and KEGG. The genes with induced expression mainly belong to classes of regulatory functions, energy metabolism, and transport proteins. PilA and Chemotaxis proteins were found, suggesting a role of NAG in the transformation. Repressed expression genes are mainly included in the functions of energy metabolism, cell address, and hypothetical proteins. This study demonstrated that NAG interfere in regulation of different cell processes, including the ability to capture DNA from the medium by V. parahaemolyticus. / A análise da expressão gênica em larga escala é de fundamental importância para a melhor compreensão do funcionamento celular e dos mecanismos de regulação gênica. Ela possibilita a medida dos níveis de expressão de milhares de genes simultaneamente, o que torna possível uma visão mais abrangente do sistema biológico. Dentre as principais técnicas experimentais disponíveis para esta finalidade, a tecnologia de microarranjo tem sido amplamente utilizada. O objetivo desta dissertação foi determinar os genes de V. parahaemolyticus que têm sua expressão induzida ou reprimida na presença do aminoaçúcar N-acetilglucosamina (NAG). V. parahaemolyticus é uma bactéria marinha, comumente encontrada na água e em associação com organismos marinhos. O NAG é um dos aminoaçúcares mais abundantes no meio marinho. Para isso, Vibro parahaemolyticus RIMD2210633, foi cultivada em dois meios como fontes de energia. O primeiro meio composto por maltose e NAG e o segundo apenas por NAG. O cultivo bacteriano foi feito em condições aeróbicas, sob baixa agitação, a 28°C. Foram retiradas duas amostras do cultivo no tempo de 24 horas após o início do experimento a fim de realizar a extração de mRNA e a preparação do cDNA. Os experimentos foram feitos em três replicas. As misturas de cDNA preparadas a partir do RNA extraído de cada réplica foram utilizadas em hibridizações em lâminas de microarranjo contendo um total de 4832 ORFS do genoma de V. parahaemolyticus RIMD2210633. A análise comparativa da expressão gênica de V. parahaemolyticus nas duas condições de cultivo resultou na detecção de 59 genes com expressão induzida, 38 genes reprimidos, e 4245 sem expressão modificada (aumentada ou diminuída) na presença de NAG. No total, 523 genes foram excluídos da comparação pois a hibridização não foi satisfatória. Ocorreu uma ordenação dos genes seguindo a classificação funcional do banco de dados TIGR-CMR e KEGG. Os genes com expressão induzida, pertencem principalmente às classes de funções regulatórias, metabolismo de energia, e proteínas de transporte. Foram também encontradas proteínas PilA e de quimiotaxia, sugerindo um papel da NAG na transformação. Já os genes de expressão reprimida compreendem principalmente as funções de metabolismo de energia, endereçamento celular, e proteínas hipotéticas. O presente estudo demonstrou que NAG interfere na regulação de diferentes processos celulales, incluindo a capacidade de captura de DNA do meio por V. parahaemolyticus.

Vibrio cholerae é uma bactéria autóctone em ecossistemas aquáticos, os fatores responsáveis pela virulência podem contribuir com a patogenicidade, influenciados por fatores genéticos e ambientais. Considerando a importância de conhecer e monitorar o V. cholerae, o estudo pretende caracterizar isolados da especie e padronizar uma metodologia para detecção em amostras de água. Os isolados foram avaliados por metodologias clássicas e moleculares, para confirmar espécie. Também, foi avaliada a presença de genes de virulência, susceptibilidade aos antibióticos e resposta em modelo invertebrado. Tres marcadores moleculares foram avaliados por PCR quantitativa. Observou-se que setenta dos isolados pertenciam a espécie V. cholerae e mostraram variação na prevalência dos genes de virulência e ao perfil de suscetibilidade ao antibióticos. Mostrou uma influencia da temperatura e concentração do inoculo no modelo invertebrado. Os marcadores moleculares selecionados mostraram a viabilidade da metodologia proposta neste estudo pela alta especificidade e sensibilidade. / Vibrio cholerae is an autochthonous bacterium in aquatic ecosystems, factors responsible for virulence may contribute to pathogenicity, influenced by genetic and environmental factors. Considering the importance of knowing and monitoring V. cholerae, the study pretend to characterize selected isolates and to standardize a methodology for detection in water samples. The isolates were evaluated by classical and molecular methodologies to confirm species. Also, the presence of factors associated with virulence, antibiotics susceptibility and response in invertebrate model were evaluated. Three molecular markers were evaluated by quantitative PCR. It was observed that seventy of the isolates belonged to the V. cholerae species and showed a variation in the prevalence of the virulence genes and the antibiotic susceptibility profile. Also, showed an influence of the inoculum temperature and concentration on the invertebrate model. The selected molecular markers showed the viability of the methodology proposed in this study for the high specificity and sensitivity.

Submitted by Cleide Dantas (cleidedantas@ufpa.br) on 2014-02-10T14:29:20Z No. of bitstreams: 2 license_rdf: 23898 bytes, checksum: e363e809996cf46ada20da1accfcd9c7 (MD5) Dissertacao_CaracterizacaoMolecularVibrio.pdf: 3174345 bytes, checksum: 206791fda17f07e3185ab94a45a6791f (MD5) / Approved for entry into archive by Ana Rosa Silva (arosa@ufpa.br) on 2014-04-16T15:10:09Z (GMT) No. of bitstreams: 2 Dissertacao_CaracterizacaoMolecularVibrio.pdf: 3174345 bytes, checksum: 206791fda17f07e3185ab94a45a6791f (MD5) license_rdf: 23898 bytes, checksum: e363e809996cf46ada20da1accfcd9c7 (MD5) / Made available in DSpace on 2014-04-16T15:10:09Z (GMT). No. of bitstreams: 2 Dissertacao_CaracterizacaoMolecularVibrio.pdf: 3174345 bytes, checksum: 206791fda17f07e3185ab94a45a6791f (MD5) license_rdf: 23898 bytes, checksum: e363e809996cf46ada20da1accfcd9c7 (MD5) Previous issue date: 2011 / CAPES - Coordenação de Aperfeiçoamento de Pessoal de Nível Superior / O V.cholerae é um microorganismo autóctone do ambiente aquático e os sorogrupos O1 e O 139 estão ligados a pandemia e epidemia de cólera. Os V.cholerae não O1 e não O139 ou vibrios não aglutinantes (NAGs) estão envolvidos em casos isolados e surtos de diarréia semelhantes à cólera. No decorrer da sétima pandemia houve o surgimento de diversos isolados “El Tor atípicos”. Entre estes se encontra a variante bioquímica do V.cholerae O1 que não fermenta a sacarose no TCBS em 18 a 24 horas que é o tempo de incubação convencional. Neste trabalho foram estudados 138 isolados de V.cholerae O1 e não O1 não fermentador da sacarose no TCBS de procedência clínica e ambiental, obtidos entre 1994 e 1995 na Amazônia Brasileira (Estados do Pará, Amapá e Amazonas). Avaliou-se a fermentação da sacarose no TCBS e em caldo; o perfil de suscetibilidade a oito diferentes antimicrobianos em ágar difusão; a relação clonal entre os V.cholerae O1 e NAG clínicos e ambientais pelo PFGE e a presença de genes de virulência ctxAB e tcpA pela reação em cadeia da polimerase. Observou-se que as amostras de V.cholerae não fermentaram a sacarose em 24 de incubação no ágar TCBS e em caldo, 43% utilizaram a sacarose em 24 horas e 57% a fermentavam tardiamente (tempo superior a 24 horas). Os isolados apresentaram baixo percentual de resistência a antimicrobianos (8,7%) e nenhum caso de multiresistência. Em relação aos genes de virulência, de um modo geral, os isolados de V.cholerae O1 apresentavam o tcpA e o ctxAB. Nos não O1 estes estavam ausentes, com exceção de um isolado clínico não O1 (gene tcpA+). A análise do PFGE revelou pulsotipos distintos entre os O1 e NAGs, embora dois destes últimos tenham apresentado relação clonal com os O1 clínicos. Todos os O1 clínicos apresentaram relação clonal com isolados de referência da sétima pandemia. / The V. cholerae is an autochthonous organism of the aquatic environment and serogroups O1 and 139 are associated to the pandemic and epidemic cholera. The V. cholerae non-O1 and non O139 or non-binders vibrios (NAGS) are involved in isolated cases and outbreaks of cholera-like diarrhea. During the seventh pandemic there was the emergence of several isolated “El Tor atypical”. Among these there is a biochemical variant of V. cholerae O1 that does not ferment sucrose in TCBS in 18 to 24 hours which is the conventional incubation time. In this work, we studied 138 isolates of V. cholerae O1 and non O1 non-fermenter of sucrose on TCBS from clinical and environmental origin, obtained between 1994 and 1995 in the Brazilian Amazon (states of Pará, Amapá and Amazonas). We evaluated the fermentation of sucrose in TCBS and broth; the susceptibility to eight different antimicrobials in agar diffusion, the clonal relationship between V. cholerae O1 and NAG from clinical and environmental origin by PFGE and the presence of virulence genes tcpA and ctxAB by the polymerase chain reaction. It was observed that the samples of V. cholerae did not ferment sucrose in 24 hours of incubation in TCBS agar and broth, 43% used sucrose in 24 hours and 57% fermented it lately (more than 24 hours). The isolates had a low percentage of antimicrobial resistance (8.7%) and no cases of multidrug resistance. Regarding the virulence genes, in general, the isolates of V. cholerae O1 showed the ctxAB and tcpA. In the non-O1, these were absent, except for one clinical isolate non-O1 (gene tcpA +). The PFGE analysis revealed pulsotypes distinguished between O1 and nags, although two of the latter had presented the clonal relationship to clinical O1. All O1 clinical isolates were clonally related to the reference isolates from the seventh pandemic.

La résistance aux antibiotiques est un enjeu de santé publique mondiale. L'alimentation est une des voies de contamination des bactéries résistantes aux antibiotiques entre l'environnement et l'Homme. Toutefois, les données concernant les bactéries résistantes aux antibiotiques dans les produits aquatiques sont rares. L'objectif de ces travaux a été d'étudier la flore bactérienne et sa résistance aux antibiotiques dans les produits de la pêche et de l'aquaculture. Dans un premier temps, la flore bactérienne mésophile cultivable a été isolée de 9 matrices différentes puis identifiée par la technique MALDI-TOF et/ou du séquençage de différents gènes de ménage. Au final, 1882 isolats bactériens ont été obtenus, et 150 espèces et 57 genres bactériens ont été identifiés. Dans un deuxième temps, nous avons étudié la résistance aux antibiotiques des genres bactériens les plus fréquemment isolés de ces produits. La résistance aux antibiotiques des genres Enterococcus, Staphylococcus, Exiguobacterium, Pseudomonas, Vibrio et Proteus a donc été étudiée. Au total, 46% des isolats étaient résistants aux antibiotiques et 3% étaient multi-résistants. Les crevettes étaient le produit dans lequel le plus de souches résistantes aux antibiotiques ont été identifiée. Et dans un troisième temps, la résistance aux antibiotiques d'une collection de souche de Vibrio parahaemolyticus, espèce bactérienne pathogène alimentaire pour l'homme, a été étudiée. Concernant V. parahaemolyticus, 15% des souches étaient résistantes et 3% des souches étaient multi-résistantes. Une souche, 16-B3PA-006, isolées de crevettes importées d'Asie du Sud-Est produisait une carbapénèmase NDM-1 et était résistante à 5 classes d'antibiotiques. / Antimicrobial resistance is a threat to global public health. Human can be contaminated by antibiotic resistant bacteria through food. However, data on antimicrobial resistant bacteria in seafood are scarce. The aim of this thesis was to study seafood bacterial flora and its antimicrobial resistance. First, mesophilic flora was obtained from 9 matrixes and MALDI-TOF and housekeeping genes sequencing technics were used to identify isolates. Antimicrobial resistance of most frequently bacteria were tested. In total, 1882 isolates were obtained and 150 bacterial species and 57 genera were identified. Enterococcus, Staphylococcus, Exiguobacterium, Pseudomonas, Vibrio and Proteus were most frequently isolated and their antimicrobial resistance was studied. Antibiotic resistant bacteria accounted for 46% of isolates and multidrug resistant bacteria accounted for 3% of isolates. Antimicrobial resistant bacteria were mostly isolated from shrimps. On a side study, antimicrobial resistance of a V.parahaemolyticus strain collection isolated from seafood was characterized. Antimicrobial resistant strains accounted for 15% and multi-drug resistant bacteria accounted for 3%. A NDM-1-producing multidrug resistant strain, 16-B3PA-006 was identified from shrimps imported from South-East Asia.

La palourde japonaise, Ruditapes philippinarum, a été introduite en France en 1972 suite à une volonté de diversification de la production aquacole des bivalves. A la fin des années 1980, des épisodes de mortalité massive ont été observés dans les parcs vénéricoles du pays des Abers (Finistère, France). La mortalité massive des palourdes a été associée à la maladie de l’anneau brun (MAB), une vibriose dont l’agent étiologique est Vibrio tapetis. Le développement de la MAB en milieu naturel a été associé à la modulation de certains facteurs environnementaux tels que la température ou la présence de ressource trophique. Dans le cadre de ce travail et dans un premier temps, des infections expérimentales de palourdes avec différentes souches de V. tapetis ont été effectuées conjointement à une acclimatation des animaux à deux températures contrastées. L’augmentation de la température de 15 à 22 °C a été associée à de plus fortes activités enzymatiques de la superoxyde dismutase (SOD), impliquée dans le système antioxydant, et de la phénoloxydase (PO), impliquée dans le système immunitaire inné. L’augmentation de la température a également conduit à une diminution de la virulence de Vibrio tapetis. Ensemble, ces résultats permettent d’expliquer la baisse de la prévalence et de l’intensité de la MAB à 22 °C. Dans un second temps, des palourdes sexuellement matures nourries avec deux algues contrastées en termes de composition lipidique ont été infectées par V. tapetis. Si la qualité des microalgues n’a pas conduit à des différences de prévalence et d’intensité de la MAB, le statut de reproduction des animaux a eu une influence sur l’intensité de la maladie. Les réponses métaboliques de R. philippinarum exposée à V. tapetis n’ont pas été influencées par la qualité de la nourriture mais par le développement de la MAB. Ces réponses consistaient en une modulation de l’activité d’enzymes antioxydantes (SOD, catalase, glutathion peroxydase, glutathion réductase,glutathion-S-transférase) et d’enzymes reliées au système immunitaire inné (PO et oxyde nitrique synthase inductible) en fonction de la présence de signes cliniques de la MAB. Finalement, l’utilisation de ces indicateurs biochimiques pourrait permettre d’établir des critères de sélection d’individus résistants à la MAB. / The Manila clam, Ruditapes philippinarum, was introduced in France in 1972 following the willingness of bivalve aquaculture diversification. In the late 1980s, episodic mass mortality events were observed in ponds of the “Pays des Abers” region (Finistère, France). The massive mortality of clams was associated brown ring disease (BRD), a vibriosis which causative agent is Vibrio tapetis. BRD development in field has been associated with the modulation of environmental factors such as temperature or the presence of trophic resource. Firstly in the frame of the present work, experimental infections of clams with different strains of V. tapetis were performed together with animal acclimation at two contrasted temperatures. The increase of temperature from 15 to 22 ° C was associated with higher enzymatic activities of superoxide dismutase (SOD), involved in the antioxidant system, and the phenoloxidase (PO), involved in the innate immune system. Temperature increase also led to a decrease in virulence of V. tapetis. Together, these results might explain the decline in BRD prevalence and intensity observed at 22 ° C. Secondly, sexually mature clams fed with two microalgal diets contrasted in terms of lipid composition were infected with V. tapetis. Although microalgae quality did not lead to any difference in BRD prevalence and intensity, the reproductive status of clams influenced BRD intensity. Metabolic responses of R. philippinarum exposed to V. tapetis were not influenced by the food quality but mainly by BRD development. These responses consisted in a modulation of the activity of antioxidant enzymes (SOD, catalase, glutathione peroxidase, glutathione reductase, glutathione S-transferase) and enzymes related to innate immune system (PO and inducible nitric oxide synthase) according to the presence of BRD clinical signs. Finally, the use of these biochemical indicators could allow for new criteria for selection of BRD resistant clams.