Taxonomic rearrangements of the genera Thiocapsa and Amoebobacter on the basis of 16S rDNA sequence analyses and description of Thiolamprovum gen. nov.

Complete nucleotide sequences of the 16S rDNAs were determined from Thiocapsa and Amoebobacter species, including all available type strains and some additional isolates. The distance-matrix analysis and the dendrogram for estimating the genetic relationships revealed that the investigated strains were found in two major clusters within the Chromatiaceae. One cluster comprises all Amoebobacter species, Thiocapsa roseopersicina and several isolates related to Thiocapsa roseopersicina. Representatives of the species Amoebobacter roseus, Amoebobacter pendens and Thiocapsa roseopersicina, the so called ‘Thiocapsa roseopersicina group’, are very closely related, justifying their inclusion into one genus, Thiocapsa, for which an emended description is presented. Amoebobacter purpureus and Amoebobacter pedioformis formed two separate lines of descent with less than 93% (89·6–92·9%) similarity to strains of the ‘Thiocapsa roseopersicina group’. Therefore, they will be considered as two separate genera. As a consequence, an emended description is presented for the genus Amoebobacter, with Amoebobacter purpureus as the new type species and A. pedioformis is transferred to Thiolamprovum pedioforme gen. nov., comb. nov. Two species, Thiocapsa pfennigii and Thiocapsa halophila, which have been classified with the genus Thiocapsa because of their morphological properties, were found within another major cluster of the Chromatiaceae and are only distantly phylogenetically related to the first cluster with 88·4–90·6% and 90·4–92·2% sequence similarity, respectively

Marichromatium bheemlicum sp. nov., a non-diazotrophic photosynthetic gammaproteobacterium from a marine aquaculture pond

A rod-shaped, phototrophic, purple sulfur bacterium, strain JA124(T), was isolated in pure culture from a marine aquaculture pond, located near Bhimunipatnam, in a medium that contained 3 % NaCl (w/v). Strain JA124(T) is a Gram-negative, motile rod with a single polar flagellum. Strain JA124(T) has a requirement for NaCl, with optimum growth at 1.5-8.5 %, and tolerates up to 11 % NaCl. Intracellular photosynthetic membranes are of the vesicular type. Bacteriochlorophyll a and probably carotenoids of the spirilloxanthin series are present as photosynthetic pigments. Strain JA124(T) was able to utilize sulfide, sulfate, thiosulfate, sulfite, thioglycollate and cysteine as sulfur sources. Strain JA124(T) was able to grow photolithoautotrophically, photolithoheterotrophically and photo-organoheterotrophically. Chemotrophic and fermentative growth could not be demonstrated. Strain JA124(T) lacks diazotrophic growth and acetylene reduction activity. Pyridoxal phosphate is required for growth. During growth on reduced sulfur sources as electron donors, sulfur is deposited intermediately as a number of small granules within the cell. Phylogenetic analysis on the basis of 16S rRNA gene sequences showed that strain JA124(T) clusters with species of the genus Marichromatium belonging to the class Gammaproteobacteria. The highest sequence similarities of strain JA124(T) were found with the type strains of Marichromatium indicum (98 %), Marichromatium purpuratum (95 %) and Marichromatium gracile (93 %). However, DNA-DNA hybridization with Marichromatium indicum DSM 15907(T) revealed relatedness of only 65 % with strain JA124(T). The DNA base composition of strain JA124(T) was 67 mol% G+C (by HPLC). Based on 16S rRNA gene sequence analysis, morphological and physiological characteristics and DNA-DNA hybridization studies, strain JA124(T) (=ATCC BAA-1316(T)=JCM 13911(T)) is sufficiently different from other Marichromatium species to merit its description as the type strain of a novel species, Marichromatium bheemlicum sp. nov

Welfare of broilers on farm

This Scientific Opinion considers the welfare of domestic fowl (Gallus gallus) related to the production of meat (broilers) and includes the keeping of day-old chicks, broiler breeders, and broiler chickens. Currently used husbandry systems in the EU are described. Overall, 19 highly relevant welfare consequences (WCs) were identified based on severity, duration and frequency of occurrence: 'bone lesions', 'cold stress', 'gastro-enteric disorders', 'group stress', 'handling stress', 'heat stress', 'isolation stress', 'inability to perform comfort behaviour', 'inability to perform exploratory or foraging behaviour', 'inability to avoid unwanted sexual behaviour', 'locomotory disorders', 'prolonged hunger', 'prolonged thirst', 'predation stress', 'restriction of movement', 'resting problems', 'sensory under- and overstimulation', 'soft tissue and integument damage' and 'umbilical disorders'. These WCs and their animal-based measures (ABMs) that can identify them are described in detail. A variety of hazards related to the different husbandry systems were identified as well as ABMs for assessing the different WCs. Measures to prevent or correct the hazards and/or mitigate each of the WCs are listed. Recommendations are provided on quantitative or qualitative criteria to answer specific questions on the welfare of broilers and related to genetic selection, temperature, feed and water restriction, use of cages, light, air quality and mutilations in breeders such as beak trimming, de-toeing and comb dubbing. In addition, minimal requirements (e.g. stocking density, group size, nests, provision of litter, perches and platforms, drinkers and feeders, of covered veranda and outdoor range) for an enclosure for keeping broiler chickens (fast-growing, slower-growing and broiler breeders) are recommended. Finally, 'total mortality', 'wounds', 'carcass condemnation' and 'footpad dermatitis' are proposed as indicators for monitoring at slaughter the welfare of broilers on-farm

The In Vivo Role of the RP-Mdm2-p53 Pathway in Signaling Oncogenic Stress Induced by pRb Inactivation and Ras Overexpression

The Mdm2-p53 tumor suppression pathway plays a vital role in regulating cellular homeostasis by integrating a variety of stressors and eliciting effects on cell growth and proliferation. Recent studies have demonstrated an in vivo signaling pathway mediated by ribosomal protein (RP)-Mdm2 interaction that responds to ribosome biogenesis stress and evokes a protective p53 reaction. It has been shown that mice harboring a Cys-to-Phe mutation in the zinc finger of Mdm2 that specifically disrupts RP L11-Mdm2 binding are prone to accelerated lymphomagenesis in an oncogenic c-Myc driven mouse model of Burkitt's lymphoma. Because most oncogenes when upregulated simultaneously promote both cellular growth and proliferation, it therefore stands to reason that the RP-Mdm2-p53 pathway might also be essential in response to oncogenes other than c-Myc. Using genetically engineered mice, we now show that disruption of the RP-Mdm2-p53 pathway by an Mdm2C305F mutation does not accelerate prostatic tumorigenesis induced by inactivation of the pRb family proteins (pRb/p107/p130). In contrast, loss of p19Arf greatly accelerates the progression of prostate cancer induced by inhibition of pRb family proteins. Moreover, using ectopically expressed oncogenic H-Ras we demonstrate that p53 response remains intact in the Mdm2C305F mutant MEF cells. Thus, unlike the p19Arf-Mdm2-p53 pathway, which is considered a general oncogenic response pathway, the RP-Mdm2-p53 pathway appears to specifically suppress tumorigenesis induced by oncogenic c-Myc

Utilization of the compatible solutes sucrose and trehalose by purple sulfur and nonsulfur bacteria

International audienceOwing to their ubiquity as compatible solutes, sucrose and trehalose and their constituent monosaccharides, glucose and fructose, may represent a significant source of carbon for the growth of other bacteria. We investigated sugar utilization by 34 strains of purple sulfur and nonsulfur bacteria isolated from coastal lagoons. Amongst the purple nonsulfur bacteria, sugar utilization was common with almost all strains utilizing the tested monosaccharides and 70 and 50% of strains utilizing sucrose and trehalose, respectively. Sugar utilization was rarer amongst the purple sulfur bacteria, with none of the strains using glucose or trehalose. Fructose, was utilized by 50% of isolates and sucrose was utilized only by strains of Thiorhodococcus. Surprisingly, although unable to use glucose directly, Thiorhodococcus strains used both the glucose and fructose moieties of sucrose and utilized glucose slowly in the presence of fructose, indicating that these strains may be impaired in glucose transport, rather than glucose metabolism per se. Disaccharide metabolism was dependent on sugar uptake and none of the strains produced trehalases or sucrases. Efficacy of sugar utilization varied widely with specific growth yield between 0.09 and 0.78 g dry weight·g sugar-1, and was dependent upon both the sugar and the strain. Similarly, specific growth rates were highly variable with strain and the sugar present and ranged between 5.4 and 0.5 x 10-2·h-1. Overall, data indicate that in natural high salinity ecosystems, purple sulfur and particularly purple nonsulfur bacteria may be able to efficiently exploit compatible solutes released to the environment by other members of the bacterial community

Impact of macroalgal dredging on dystrophic crises and phototrophic bacterial blooms (red waters) in a brackish coastal lagoon

The Prevost lagoon (Mediterranean coast, France), was subject to annual dystrophic crises caused by the biodegradation of opportunistic macroalgae (Ulva lactuca) in the past. These crises result in anoxic waters with subsequent blooms of Purple Sulphur Bacteria (red waters) which, by oxidizing sulphide, contribute to the reestablishment of oxic conditions in the water column. Mechanical dredging of the macroalgal biomass has been carried out in the lagoon since 1991 with the aim of preventing the ecological and economic disturbances caused by such crises. Dredging began just before the phototrophic bloom when the water was already hypoxic (O-2 = 0.7 mg . L-1) and contained sulphilde (H2S = 7.3 mg . L-1) and purple patches of phototrophic bacteria (Thiocapsa sp.) that were beginning to develop on decaying macroalgae at the sediment surface. The dredging prevented red water formation and drastically modified both phototrophic community structure and activity and biogeochemical sulphur cycling. The dredging permitted the reestablishment of oxic conditions for a short period only (1-13 August). Resuspension of the superficial sediment layers disturbed the phototrophic bacterial community, whose numbers decreased by one order of magnitude (from 2 x 10(6) to 3.9 x 10(5) CFU.mL(-1)). The phototrophic community was no longer effective in reoxidizing the reduced sulphur compounds remaining its the sediments, as shown by a drastic sulphate depletion in the superficial sediment layers. Moreover, the increase in the specific bacteriochlorophyll a concentration of the phototrophic purple bacteria and the rapid development of Green Sulphur Bacteria (Prosthecochloris-like microorganisms) indicated that the phototrophic community was growing under severe light-limiting conditions due to the resuspension of sediment particles in the water. These conditions did not allow the phototrophic bacterial community to efficiently reoxidize the reduced sulphur compounds originating from the sediments. In consequence, hypoxic conditions (O-2 = 4.7 to 4.8 mg . L-1) and low sulphide concentrations (H2S = 0.4 to 0.7 mg . L-1) were detected in the water column until September. The ecological balance in the lagoon was reestablished only in October, whereas, in previous years it had been restored in August.L'étang du Prévost (côte méditerranéenne française) a été soumis périodiquement à des crises dystrophiques estivales provoquées par la biodégradation de grandes quantités de macroalgues (Ulva lactuca). Ces crises se traduisent par l'anoxie des eaux et la formation d'eaux rouges (malaïgues) dues au développement des bactéries phototrophes sulfureuses rouges ; par leur activité de réoxydation des composés soufrés toxiques, ces microorganismes contribuent à la restauration de conditions oxiques. Depuis 1991, afin d'éviter les nuisances écologiques et économiques causées par ces phénomènes, un programme de dragage des macroalgues a été mis en place dans l'étang. Le ramassage des algues est entrepris juste avant le développement de l'eau rouge, lorsque les eaux sont déjà hypoxiques (O2 = 0.4 to 0.7 mg·L−1) et contiennent du sulfure (H2S = 7,3 mg·L−1). Les bactéries phototrophes (Thiocapsa sp.) forment déjà des biofilms sur les macroalgues en décomposition à la surface des sédiments. Le dragage évite la formation de l'eau rouge et influe largement sur la communauté de bactéries phototrophes et donc sur le cycle du soufre. Le dragage ne restaure des conditions oxiques dans les eaux de l'étang que pour une courte durée. La mise en suspension des sédiments superficiels affecte la communauté de bactéries phototrophes dont les nombres ont chuté d'un facteur 10 (de 2 × 106 à 3,9 × 105 CFU.mL−1). Le déficit en sulfate des sédiments superficiels montre que cette communauté n'est plus capable de réoxyder les composés soufrés issus des sédiments. De plus, l'augmentation du contenu spécifique en Bchl.a des bactéries phototrophes rouges ainsi que le développement rapide des bactéries phototrophes vertes sulfureuses (Prosthecochloris sp.) indiquent que la lumière constitue un facteur limitant l'activité de ces microorganismes, facteur limitant par suite de la mise en suspension de particules sédimentaires. Cette communauté ne pouvant plus jouer son rôle dans la réoxydation des composés soufrés, les eaux redeviennent hypoxiques (O2 = 4,7 à 4,8 mg·L−1) alors que de faibles concentrations en sulfures y sont détectées (H2S = 0,4 à 0,7 mg·L−1). Les conditions normales ne sont rétablies dans l'étang du Prévost qu'en octobre alors que les années précédentes elles étaient atteintes plus tôt en été

Molecular analysis of the spatio-temporal distribution of sulfate-reducing bacteria (SRB) in Camargue (France) hypersaline microbial mat

International audienceThe spatio-temporal distribution of sulfate-reducing bacteria (SRB) in the microbial mat of Camargue (Salins-de-Giraud, France) was investigated by molecular approaches at both microscale spatial resolution and different taxonomic organization levels. The vertical distribution of the SRB populations was correlated with oxygen and sulfide microgradient fluctuations. Comparisons of Terminal restriction fragment length polymorphism (T-RFLP) fingerprints showed distinct locations of some operational taxonomic units at daytime and at night (4:00 or 15:00 hours) revealing important differences on the structures of the bacterial communities. When oxygen penetrates the mat, SRB migration was observed either downward to reach deeper anoxic zones to escape oxygen or upward to reach oxic surface zones. When no migration was observed, both metabolism switches and aggregate formations were suspected. These behaviors allowed the aerotolerant SRB to deal with oxygen. The analysis of the Desulfococcus- Desulfonema-Desulfosarcina T-RFLP profiles revealed up-migrating populations related to both Desulfonema sp. and Desulfosarcina variabilis. T-RFLP profiles combined with 16S ribosomal ribonucleic acid gene library analysis of the Desulfobacter group revealed two distinct populations: a population related to the recently described Desulfotignum genus migrating upward during the night and a population of a new species of the Desulfobacter uniformly located throughout the mat independent of the period. Thus, the identification of the new oxygen-tolerant SRB will provide the basis for understanding the physiological adaptations to oxygen