Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
This study investigated the clinical epidemiology and resistance mechanisms of Acinetobacter baumannii and characterised the clonal diversity of carbapenem-resistant A. baumannii (CRAB) during an ICU-associated outbreak at Cayenne Hospital, French Guiana. All non-duplicate A. baumannii isolates from 2008 to 2014 were tested for antibiotic susceptibility by disk diffusion. Multilocus sequence typing, pulsed-field gel electrophoresis (PFGE) and characterisation of carbapenemase-encoding genes were performed on CRAB. Of the 441 A. baumannii isolates, most were from males (54.0%) and were detected mainly from the ICU (30.8%) and medicine wards (21.8%). In the ICU, strains were mainly isolated from the respiratory tract (44.1%) and bloodstream (14.0%), whereas in medicine wards they mainly were from wound/drainage (36.5%) and bloodstream (25.0%). A. baumannii showed the greatest susceptibility to piperacillin/tazobactam (92.7%), imipenem (92.5%), colistin (95.6%) and amikacin (97.2%), being lower in the ICU and medicine wards compared with other wards. An outbreak of OXA-23-producing CRAB occurred in the 13-bed ICU in 2010. CRAB strains were more co-resistant to other antimicrobials compared with non-CRAB. Molecular genetics analysis revealed five sequence types [ST78, ST107 and ST642 and two new STs (ST830 and ST831)]. Analysis of PFGE profiles indicated cross-transmissions of CRAB within the ICU, between the ICU and one medicine ward during transfer of patients, and within that medicine ward. This study provides the first clinical and molecular data of A. baumannii from French Guiana and the Amazon basin. The ICU was the highest risk unit of this nosocomial outbreak of OXA-23-producing CRAB, which could subsequently disseminate within the hospital.
ISSN: 0924-8579

hal-01506828
https://hal.archives-ouvertes.fr/hal-01506828
PUBMED : 27236843

Éditeur(s) : HAL CCSD
Résumé : Les dossiers thématiques d'Agropolis, n° 11
Dans le contexte actuel de contraintes climatiques et socioéconomiques, les agricultures des zones sèches doivent évoluer afin de s’adapter et de répondre à un double défi : produire plus pour satisfaire les besoins alimentaires importants de populations en croissance, mais aussi produire mieux de façon viable et durable. Pour cela, les agricultures de ces zones doivent évoluer vers des modes de production à la fois plus productifs, économes en ressources naturelles et résistants aux aléas climatiques.Dans ce cadre, l’ingénierie écologique propose de nouvelles alternatives de gestion des systèmes agro-sylvo-pastoraux caractéristiques des régions arides et semi-arides d’Afrique subsaharienne. Ceci implique de maitriser la complexité des systèmes étudiés et de s’inspirer à la fois du fonctionnement des écosystèmes naturels de référence à la région agroécologique concernée — les savanes pour les zones sèches ouest-africaines — et des pratiques traditionnelles et savoir-faire locaux issus d’une longue adaptation face aux contraintes environnementales.À partir des expériences ouest-africaines notamment, différentes options pratiques sont exposées dans ce dossier. On pourra ainsi agir sur la biodiversité des organismes, que ce soit les plantes ou les microorganismes du sol par exemple, favoriser le recyclage des matières organiques et des éléments nutritifs pour les plantes qui sont associées, maitriser les cycles de l’eau et, enfin, agir sur l’organisation des paysages pour favoriser un meilleur contrôle des ravageurs de culture.Cependant, développer une telle approche demande une vision intégrée du fonctionnement et de l’évolution des systèmes agro-sylvo-pastoraux. Les questions sociales — le foncier, l’urbanisation et les migrations — et économiques — les marchés des denrées de première nécessité, la pauvreté, etc. — sont des déterminants essentiels qu’il convient de prendre en compte pour le développement durable des populations dans les zones sèches en Afrique subsaharienne.
https://hal.archives-ouvertes.fr/hal-01585038

hal-01585038
https://hal.archives-ouvertes.fr/hal-01585038

Éditeur(s) : HAL CCSD Oxford University Press
Résumé : International audience
The BioMart Community Portal (www.biomart.org) is a community-driven effort to provide a unified interface to biomedical databases that are distributed worldwide. The portal provides access to numerous database projects supported by 30 scientific organizations. It includes over 800 different biological datasets spanning genomics, proteomics, model organisms, cancer data, ontology information and more. All resources available through the portal are independently administered and funded by their host organizations. The BioMart data federation technology provides a unified interface to all the available data. The latest version of the portal comes with many new databases that have been created by our ever-growing community. It also comes with better support and extensibility for data analysis and visualization tools. A new addition to our toolbox, the enrichment analysis tool is now accessible through graphical and web service interface. The BioMart community portal averages over one million requests per day. Building on this level of service and the wealth of information that has become available, the BioMart Community Portal has introduced a new, more scalable and cheaper alternative to the large data stores maintained by specialized organizations.
ISSN: 0305-1048

hal-01146849
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01146849
DOI : 10.1093/nar/gkv350
PUBMED : 25897122

Éditeur(s) : HAL CCSD
Résumé : Session 3: Health & Nutrition/Fat and Salt Reduction
absent
The eighth Cheese symposium
Moorepark, Ireland

hal-01409434
https://hal.archives-ouvertes.fr/hal-01409434
PRODINRA : 47217

Éditeur(s) : HAL CCSD Centre de Biotechnologies de Bretagne
Résumé :  
absent
4th International Symposium Health Molecules & Ingredients : Proceedings, conferences and posters abstracts
Quimper, France

hal-01409415
https://hal.archives-ouvertes.fr/hal-01409415
PRODINRA : 40774

Éditeur(s) : HAL CCSD
Résumé : More than 15% of Amazon forest has been converted to pastures these last decades. Some authors argued the world’s permanent pastures (30 % of total land) could potentially offset up to 4% of the global GHG emissions, having a carbon (C) storage potential equal to 0.5 Mg C.ha-1.yr-1(Schulze et al 2009). Accordingly, pastures are good candidates to increase soil uptake C in soil while ensuring a basic food production. Here we would like to assess the effects of tropical forest conversion to cattle pasture in the French Amazonia (French Guiana), by following the long-term dynamics of soil C stocks of permanent tropical pastures (Brachiaria humidicola) after deforestation from 1970. A soil inventory campaign was performed to analyse soil C and N stocks (to 1 m depth) along a pasture chronosequence of 6 months to 36 years old pastures and 4 native forest sites (total 24 sites). The annual C sequestration potential demonstrated by the chronosequence, was compared with eddy covariance flux measurements on 2 pastures and one native forest. Our study shows that old (≥ 24 years) tropical pastures resettle the recurrent C storage observed in native forest. These pastures stored between 1.8 ± 0.5 and 5.3 ± 2.1 tC ha-1 yr-1 compared with 2.6 ± 0.5 tC ha-1 yr-1 for the nearby native forest. Our finding show that old tropical pastures accumulate carbon in soil organic matter, particularly in the deep soil layers (0.2-1 m) and without loss of soil fertility. It suggests that such pastures can be exploited by farmers in the long term with appropriate practices (no fire and no overgrazing, but a mixture of grasses and legumes and a grazing rotation plan). Clearly, efforts to curb deforestation are a priority in order to preserve forest biodiversity and C stocks. But it seems now that, in a climate-smart agriculture way, the current challenge is to manage these deforested areas to maintain the productivity of agricultural ecosystems and in the same time their capacity to mitigate GES.
Building tomorrow’s research agenda and bridging the science-policy gap
Montpellier, France

hal-01204231
https://hal.archives-ouvertes.fr/hal-01204231
PRODINRA : 324147

Éditeur(s) : HAL CCSD IOS Press
Résumé : The main objectives of the present work were to test the effects of heat stress on blood rheology and to determine whether the responses can change according to the pig breeds. Thirty-six pigs from three pig's lines (n = 12 for each line) with assumed different tolerance to heat stress were compared: Large White (LW, little tolerance), Creole (CR, good tolerance) and LW × CR pigs (produced from a cross between LW and CR lines). In a first period, all pigs were exposed to a 9-d period of thermo-neutral environment (24°C; d-9 to d-1; P0). At the end of P0, six pigs from each line were slaughtered (n = 18). Then in a second period, the remaining pigs (6/breed; n = 18) were exposed to a 5-d period of heat stress (32°C; d + 1 -d + 5; P1) and thereafter slaughtered at d + 5. Rectal and skin temperatures, as well as respiratory rate, were recorded on d-1 and d + 5. At slaughter, blood was sampled for hematological and hemorheological measurements. Heat stress caused a rise of the skin temperature and respiratory rate without any changes in the rectal temperature or on the hematological and hemorheological parameters when all pigs' lines were considered. We observed a pig line effect on blood viscosity at high shear rate (375 s-1) and red blood cell deformability at 30 Pa with CR pigs having lower blood viscosity and higher red blood cell deformability than LW pigs. While the changes of blood viscosity under heat stress did not reach statistical significance in LW and CR lines, blood viscosity (at 375 s-1) increased above the temperate values in the LW × CR line. Red blood cell deformability at 30 Pa was higher in CR pigs exposed to heat stress compared to LW pigs in the same condition. In conclusion, thermal loading caused physiological stress but did not widely change the hematological and hemorheological profiles. Although some blood rheological parameters seem to vary with the pig breeds, the responses to heat stress are very similar.
ISSN: 1386-0291

hal-01210926
https://hal.archives-ouvertes.fr/hal-01210926
DOI : 10.3233/CH-131722
PRODINRA : 286489
PUBMED : 23603327

Éditeur(s) : HAL CCSD Public Library of Science
Résumé : Heat stress is one of the major limiting factors of production efficiency in the swine industry. The aims of the present study were 1) to observe if hemorheological and hematological parameters could be associated to physiological acclimation during the first days of heat stress exposure and 2) to determine if water restriction could modulate the effect of thermal heat stress on physiological, hematological and hemorheological parameters. Twelve Large White male pigs were divided into an ad libitum and a water restricted group. All pigs were submitted to one week at 24 °C (D-7 to D-1). Then, at D0, temperature was progressively increased until 32 °C and maintained during one week (D1 to D7). We performed daily measurements of water and feed intake. Physiological (i.e., skin temperature, rectal temperature, respiratory rate), hematological and hemorheological parameters were measured on D-6, D-5, D0, D1, D2 and D7. Water restriction had no effect on physiological, hematological and hemorheological parameters. The first days of heat stress caused an increase in the three physiological parameters followed by a reduction of these parameters suggesting a successful acclimation of pigs to heat stress. We showed an increase in hematocrit, red blood cell aggregation and red blood cell aggregation strength during heat stress. Further, we observed an important release of reticulocytes, an increase of red blood cell deformability and a reduction of feed intake and blood viscosity under heat stress. This study suggests that physiological acute adaptation to heat stress is accompanied by large hematological and hemorheological changes.
ISSN: 1932-6203

hal-01210648
https://hal.archives-ouvertes.fr/hal-01210648
DOI : 10.1371/journal.pone.0102537
PRODINRA : 269557
PUBMED : 25013960

Éditeur(s) : HAL CCSD BioMed Central
Résumé : [b]Background[/b]: [i]Amblyomma variegatum[/i] and [i]A. hebraeum[/i] are two ticks of veterinary and human health importance in south-east Africa. In Zimbabwe they occupy parapatric (marginally overlapping and juxtaposed) distributions. Understanding the mechanisms behind this parapatry is essential for predicting the spatio-temporal dynamics of Amblyomma spp. and the impacts of associated diseases. It has been hypothesized that exclusive competition between these species results from competition at the levels of male signal reception (attraction-aggregation-attachment pheromones) or sexual competition for mates. This hypothesis predicts that the parapatry described in Zimbabwe could also be present in other countries in the region. [br/][b]Methods[/b]: To explore this competitive exclusion hypothesis we conducted field surveys at the two species' range limits in Mozambique to identify areas of sympatry (overlapping areas) and to study potential interactions (communicative and reproductive interference effects) in those areas. At sympatric sites, hetero-specific mating pairs were collected and inter-specific attractiveness/repellent effects acting at long and short distances were assessed by analyzing species co-occurrences on co-infested herds and co-infested hosts.[br/] [b]Results[/b]: Co-occurrences of both species at sampling sites were infrequent and localized in areas where both tick and host densities were low. At sympatric sites, high percentages of individuals of both species shared attachment sites on hosts and inter-specific mating rates were high. Although cross-mating rates were not significantly different for[i] A. variegatum[/i] and [i]A. hebraeum[/i] females, attraction towards hetero-specific males was greater for [i]A. hebraeum[/i] females than for A. variegatum females and we observed small asymmetrical repellent effects between males at attachment sites.[br/][b]Conclusions[/b]: Our observations suggest near-symmetrical reproductive interference between [i]A. variegatum[/i] and [i]A. hebraeum[/i], despite between-species differences in the strength of reproductive isolation barriers acting at the aggregation, fixation and partner contact levels. Theoretical models predict that sexual competition coupled with hybrid inviability, greatly reduces the probability of one species becoming established in an otherwise suitable location when the other species is already established. This mechanism can explain why the parapatric boundary in Mozambique has formed within an area of low tick densities and relatively infrequent host-mediated dispersal events.
ISSN: 1756-3305

hal-01220744
https://hal.archives-ouvertes.fr/hal-01220744
https://hal.archives-ouvertes.fr/hal-01220744/document
https://hal.archives-ouvertes.fr/hal-01220744/file/2015%20Bournez%20Parasites%20%26%20Vectors_%7B365AAFF5-7041-480B-9B77-9CD0485A9B72%7D.pdf
DOI : 10.1186/s13071-015-1116-7

Éditeur(s) : HAL CCSD
Résumé : absent
European Proteomics Association 2013 Scientific Meeting
Saint Malo, France

hal-01210490
https://hal.archives-ouvertes.fr/hal-01210490
PRODINRA : 223836

Éditeur(s) : HAL CCSD EDP Sciences
Résumé : No matter which production system is considered (5% milk farms, 95% meatfarms), the Salers breed of cattle carries a strong image. Our work aims at showing that the development of the main territory in which the breed is found may rely on specific and identified products afforded by the breed. Multidisciplinary research (animal science, economics, food quality) and different methods (surveys, follow-up, and experimentation) were implemented. The experiments focused on the control of various types of production (milk, carcasses) and on a detailed description of the products (meat, cheese), given the attributes and the special behaviour of the animals. A before-weaning feeding approach favouring milk and forage later proves more efficient for finishing the young Salers male (15 months). The meat from these young bulls is clear, classified as mid-range quality, and can be sold in supermarkets. Parallel observations were made on farms and specific protein markers of juiciness were identified. Milk from Salers cows differs from that of Holstein especially in the nature of the fatty acids. Calf suckling before milking reinforces the differences. Cheeses made with raw milk from the breed differ in their textures and flavours. The cow must however be milked with her calf and the level of labour required impedes economic valorisation of the breed. Consumer surveys have confirmed the strong image of the breed that has a good potential for commercial development. Willingness to pay for identified products, however, is stronger for cheese (up to 30%) than for meat (up to 10%). Recognized qualities of products identified as issued from Salers cattle and originality in production systems can bring significant gains to various local actors, which can be considered as territorial rents.
La race bovine Salers bénéficie d’une image forte et reconnue, indépendante du système de production, laitier pour 5 % des élevages, ou allaitant pour 95 %. Pour autant le développement du « berceau de la race » peut-il s’appuyer sur les combinaisons de productions spécifiques et identifiées qu’autorise cette race ? Des recherches multidisciplinaires (zootechnie, économie, qualité des aliments) et des méthodes d’investigation variées (enquêtes, suivis, expérimentation) ont été mises en œuvre pour répondre à cette question. Les expérimentations ont porté sur la maîtrise des itinéraires de production (lait, carcasses) et la connaissance fine des produits (fromages, viandes), compte tenu des aptitudes et du comportement de la race. Une conduite alimentaire privilégiant le lait et les fourrages avant sevrage est ainsi plus efficace pour la production d’un jeune bovin Salers (15 mois). La viande de ces taurillons est claire, classée en gamme intermédiaire, mais peut se valoriser en grande et moyenne distribution. Le lait des vaches Salers diffère de celui des vaches Holstein surtout par la nature de ses acides gras. La tétée d’amorçage du veau spécifique de la race et difficile à supprimer, renforce les différences de composition. Les fromages fabriqués avec ce lait traité à l’état cru diffèrent par leurs textures et arômes. Une filière laitière pérenne pourrait bien valoriser ces différences mais la pénibilité de la traite faite obligatoirement en présence du veau reste un obstacle. Des enquêtes auprès de consommateurs ont confirmé la forte image de la race vectrice de valorisation économique. Leur consentement à payer pour des produits identifiés est cependant plus fort pour le fromage (jusqu’à 30 %) que pour la viande (jusqu’à 10 %). Les qualités reconnues des produits identifiés comme issus de vaches Salers et l’originalité des systèmes de production peuvent apporter des plus-values significatives aux divers acteurs locaux, ce qui peut correspondre à une forme de rente territoriale.
ISSN: 1166-7699

hal-00992549
https://hal.archives-ouvertes.fr/hal-00992549
DOI : 10.1684/agr.2014.0687
PRODINRA : 259206