Transcriptional profiling of Actinobacillus pleuropneumoniae during the acute phase of a natural infection in pigs

Background

The marine cyanobacterium Prochlorococcus marinus, having multiple ecotypes of distinct genotypic/phenotypic traits and being the first documented example of genome shrinkage in free-living organisms, offers an ideal system for studying niche-driven molecular micro-diversity in closely related microbes. The present study, through an extensive comparative analysis of various genomic/proteomic features of 6 high light (HL) and 6 low light (LL) adapted strains, makes an attempt to identify molecular determinants associated with their vertical niche partitioning.

Results

Pronounced strand-specific asymmetry in synonymous codon usage is observed exclusively in LL strains. Distinct dinucleotide abundance profiles are exhibited by 2 LL strains with larger genomes and G+C-content ≈ 50% (group LLa), 4 LL strains having reduced genomes and G+C-content ≈ 35-37% (group LLb), and 6 HL strains. Taking into account the emergence of LLa, LLb and HL strains (based on 16S rRNA phylogeny), a gradual increase in average aromaticity, pI values and beta- & coil-forming propensities and a decrease in mean hydrophobicity, instability indices and helix-forming propensities of core proteins are observed. Greater variations in orthologous gene repertoire are found between LLa and LLb strains, while higher number of positively selected genes exist between LL and HL strains.

Conclusion

Strains of different Prochlorococcus groups are characterized by distinct compositional, physicochemical and structural traits that are not mere remnants of a continuous genetic drift, but are potential outcomes of a grand scheme of niche-oriented stepwise diversification, that might have driven them chronologically towards greater stability/fidelity and invoked upon them a special ability to inhabit diverse oceanic environments.     

Adventitious shoot formation is not inherent to micropropagation of banana as it is in maize

Despite their similar morphology, banana and maize shoot tips responded strikingly different with respect to the in vitro formation of homogeneous multiple shoot clusters. While up to 50 small shoots per maize explant could be induced within 1 month, zero to one additional shoot formed starting from a banana shoot tip. Subsequently, banana shoot tips were subjected to different combinations of five cytokinins (0–100 μM) and five auxins (0–5 μM). The cytokinins thidiazuron and benzylaminopurine stimulated multiplication to a higher extent compared to zeatin, kinetin and isopentenyl adenine. The addition of indoleacetic acid, naphthalene acetic acid or indolebutyric acid to cytokinin containing medium did not affect the in vitro response. In contrast, 2,4-dichlorophenoxyacetic acid (1 and 5 μM) and a higher concentration of picloram (5 μM) had a detrimental effect on shoot formation and resulted in explant death and globule development. When small (0.1 cm) shoot tips were grown on cytokinin medium without an auxin source, the average number of shoots was generally two to three times lower compared to bigger (0.5 cm) shoot tips. Based on our experience in maize and this large-scale study with banana shoot tips, we conclude that banana is extremely recalcitrant towards adventitious shoot formation. This recalcitrance could not be overcome by any of the 173 different plant growth regulator combinations tested. In vitro multiplication of banana thus appears solely restricted to axillary shoot formation.     

The use of HRMAS NMR spectroscopy to study the <Emphasis Type=Italic>in vivo</Emphasis> intra–cellular carbon/nitrogen ratio of <Emphasis Type=Italic>Solieria chordalis</Emphasis> (Rhodophyta)

The red alga Solieria chordalis (J. Agardh) C. Agardh (Rhodophyta) was used as a model to investigate the effects of changes in seawater salinity on the carbon/nitrogen ratio. Carbohydrates and nitrogenous metabolites are major components of this alga and their metabolisms are intimately linked. Previous publications have provided a solid database for these two primary metabolic pathways from experiments and observations in situ. Storage products (e.g. floridean starch), cell wall polysaccharides (carrageenan) and low molecular weight carbohydrates such as floridoside and digeneaside are major compounds constituting the pool of available carbon. Compounds such as amino acids and peptides, constitute the pool of nitrogen. This study focuses on the intracellular C/N ratio inside the pool of low molecular weight compounds. This C/N ratio can be defined as the balance between carbohydrates and amino acids. High–resolution magic angle spinning nuclear magnetic resonance spectroscopy (HRMAS NMR) provides a powerful approach for in vivo analysis of the pool of intracellular organic compounds. These in vivo results were complimented with quantitative data obtained from high performance liquid chromatography (HPLC). In vivo and in vitro experimental analyses provided a intracellular molecular balance and defined the C/N ratio. In order to study the effect of salt stress on the carbon/nitrogen ratio, S. chordalis was cultured under controlled conditions. Effects of hyposalinity and hypersalinity stresses (low 22 ‰ and high 50 ‰ salinity) were tested. Both HPLC and NMR data, obtained on stressed and unstressed algae, generated insights into variations of carbonated and nitrogenous metabolites, involving changes of the C/N ratios, and demonstrated the adaptive responses of the seaweed. 19th International Seaweed Symposium KOBE JAPAN.     

Physical, chemical, and microbiological characteristics of microbial mats (kopara) in the South Pacific atolls of French Polynesia.

Microbial mats that develop in shallow brackish and hyposaline ponds in the rims of two French polynesian atolls (Rangiroa and Tetiaroa) were intensively investigated during the past three years. Comparative assessment of these mats (called kopara in polynesian language) showed remarkable similarities in their composition and structure. Due to the lack of iron, the color of the cyanobacterial pigments produced remained visible through the entire depth of the mats (20-40 cm depth), with alternate green, purple, and pink layers. Profiles of oxygen, sulfide, pH, and redox showed the anoxia of all mats from a depth of 2-3 mm. Analyses of bacterial pigments and bacterial lipids showed that all mats consisted of stratified layers of cyanobacteria (mainly Phormidium, Schizothrix, Scytonema) and purple and green phototrophic bacteria. The purple and green phototrophic bacteria cohabit with sulfate reducers (Desulfovibrio and Desulfobacter) and other heterotrophic bacteria. The microscopic bacterial determination emphasized the influence of salinity on the bacterial diversity, with higher diversity at low salinity, mainly for purple nonsulfur bacteria. Analyses of organic material and of exopolymers were also undertaken. Difference and similarities between mats from geomorphological, microbiological, and chemical points of view are discussed to provide multicriteria of classification of mats.     

Expansion of the red alga Grateloupia doryphora along the coasts of Brittany (France)

Grateloupia doryphora (Montagne) Howe (Halymeniales, Halymeniaceae) has previously been reported for two locations along the Brittany coastline (France). Important ecological and morphological traits of the species in the breton populations are detailed here. Because of the impressive size it can reach, G. doryphora can be considered as the largest red alga in the world. G. doryphora has the tendency to dominate the algal flora once installed. At Lorient, in addition to the marginal extension of the population, a progressive colonisation of the whole intertidal zone has been noted for 2 years. The species actually preferentially develops in currents and pools where it is abundant between early winter and mid summer. An interesting development is the recent spreading from the mid and lower eulittoral towards the upper rocky pools. The seasonality of the life-cycle has also been studied over 2 years. In addition, this work reports on the first identification of G. doryphora near the Loire estuary in South Brittany, at Concarneau and in the Bay of Brest in western Brittany, and on the coasts of Normandy, at Granville and Cherbourg. The occurrence of attached specimens on ship hulls and pontoons suggests a distant transport of the species by navigation. Considering the rapid geographical propagation of G. doryphora, and its tendancy to proliferate in settling locations, the species can be regarded as potentially invasive on the north–west coasts of Europe.