Thermococcus camini sp. nov., a hyperthermophilic and piezophilic archaeon isolated from a deep-sea hydrothermal vent at the Mid-Atlantic Ridge.

A coccoid-shaped, strictly anaerobic, hyperthermophilic and piezophilic organoheterotrophic archaeon, strain Iri35cT, was isolated from a hydrothermal chimney rock sample collected at a depth of 2300 m at the Mid-Atlantic Ridge (Rainbow vent field). Cells of strain Iri35cT grew at NaCl concentrations ranging from 1-5 % (w/v) (optimum 2.0 %), from pH 5.0 to 9.0 (optimum 7.0-7.5), at temperatures between 50 and 90 °C (optimum 75-80 °C) and at pressures from 0.1 to at least 50 MPa (optimum: 10-30 MPa). The novel isolate grew on complex organic substrates, such as yeast extract, tryptone, peptone or beef extract, preferentially in the presence of elemental sulphur or l-cystine; however, these molecules were not necessary for growth. Its genomic DNA G+C content was 54.63 mol%. The genome has been annotated and the metabolic predictions are in accordance with the metabolic characteristics of the strain and of Thermococcales in general. Phylogenetic analyses based on 16S rRNA gene sequences and concatenated ribosomal protein sequences showed that strain Iri35cT belongs to the genus Thermococcus, and is closer to the species T. celericrescens and T. siculi. Average nucleotide identity scores and in silico DNA-DNA hybridization values between the genome of strain Iri35cT and the genomes of the type species of the genus Thermococcus were below the species delineation threshold. Therefore, and considering the phenotypic data presented, strain Iri35cT is suggested to represent a novel species, for which the name Thermococcus camini sp. nov. is proposed, with the type strain Iri35cT (=UBOCC M-2026T=DSM 111003T).

Persephonella atlantica sp. nov.: How to adapt to physico-chemical gradients in high temperature hydrothermal habitats.

A novel thermophilic, microaerophilic and anaerobic, hydrogen- sulphur- and thiosulphate-oxidising bacterium, designated MO1340T, was isolated from a deep-sea hydrothermal chimney collected from the Lucky Strike hydrothermal vent field on the Mid-Atlantic Ridge. Cells were short, motile rods of 1.4-2.2µm length and 0.5-0.8µm width. Optimal growth was observed for a NaCl concentration of 2.5 % (w/v) at pH 6.5. As for other members of the genus Persephonella, strain MO1340T was strictly chemolithoautotrophic and could oxidise hydrogen, elemental sulphur or thiosulphate using oxygen as electron acceptor. Anaerobic nitrate reduction using hydrogen could also be performed. Each catabolic reaction had a different optimal growth temperature (65 to 75°C) and an optimal dissolved oxygen concentration (11.4 to 119.7 µM at 70°C for aerobic reactions) that varied according to the electron donors utilised. These experimental results are consistent with the distribution of these catabolic substrates along the temperature gradient observed in active hydrothermal systems. They strongly suggest that this adaptive strategy could confer a selective advantage for strain MO1340T in the dynamic part of the ecosystem where hot, reduced hydrothermal fluid mixes with cold, oxygenated seawater. Phylogenetic analysis indicated that strain MO1340T was a member of the genus Persephonella within the order Hydrogenothermales as it shared a 16S rRNA gene sequence similarity <95.5 % and ANI respectively 75.66 % with closest described Persephonella (P. hydrogeniphila 29WT). On the basis of the physiological and genomic properties of the new isolate, the name Persephonella atlantica sp. nov. is proposed. The type strain is MO1340T (=UBOCC-M-3359T =JCM 34026T).

Influence of oyster culture on biogeochemistry and bacterial community structure at the sediment-water interface.

Bacterial community structure and some biogeochemical parameters were studied in the sediment of two Pacific oyster farming sites, Aber Benoît (AB) and Rivière d'Auray (RA) in Brittany (France), to examine the ecological impact of oysters and to evaluate the emission of sulfide and ammonia from sediment. At AB, the organic matter accumulated in the sediment beneath the oyster tables was rapidly mineralized, with strong fluxes of ammonia and sulfide that reached 1014 and 215 µmol m(-2) h(-1), respectively, in June 2007. At RA, the fluxes were about half as strong on average and better distributed through the year. The ammonia and sulfide concentrations in the overlying water never reached levels that would be toxic to oysters in either site, nor did hypoxia occur. Total culturable bacteria (TCB) varied greatly according to the temperature: from 1.6 × 10(4) to 9.4 × 10(7) cell g(-1) sediment. Inversely, the bacterial community structure remained surprising stable through the seasons, marginally influenced by the presence of oysters and by temperature. Bacterial communities appeared to be characteristic of the sites, with only one common phylotype, Vibrio aestuarianus, a potential oyster pathogen. These data refine the hypothesis of seawater toxicity to oysters because of ammonia and sulfide fluxes and show that the measured environmental factors had only a weak influence on bacterial community structure.

Occurrence and seasonality of Vibrio aestuarianus in sediment and Crassostrea gigas haemolymph at two oyster farms in France.

Vibrio aestuarianus is frequently found in coastal areas and can infect and induce mortalities in the pacific oyster Crassostrea gigas. However, nothing is known about its distribution and seasonality in the estuarine environment, especially where oyster farming is practiced. Its occurrence was investigated in sediment and oyster haemolymph at 2 oyster farms in Brittany (France) over 2 yr during 2 periods, from June to September 2007 and from February to June 2008. Total heterotrophic bacteria (HB) were cultured on marine agar while total Vibrio spp. and V aestuarianus were selectively numerated using thiosulfate citrate bile salts sucrose agar (TCBS agar) and the species-specific hybridisation method, respectively. PCR was performed to detect V aestuarianus in sediment when it became unculturable. Both total Vibrio spp. and V aestuarianus had a seasonal trend. The highest concentrations were recovered in the warmest months. Its abundance ranged from 10(2) to 4 x 10(5) CFU ml(-1) in haemolymph and from 10(3) to 1 x 10(4) CFU g(-1) in the sediment. Temperature was the main factor influencing the concentration of Vibrio spp. and V. aestuarianus in the sediment. Thus V aestuarianus might subsist during the cold seasons in the sediment, from which it can emerge when environmental conditions became favourable.

Influence of sex, maturity and reproduction on PCB and p,p'DDE concentrations and repartitions in the European hake (Merluccius merluccius, L.) from the Gulf of Lions (N.W. Mediterranean).

The main objective of this work was to establish the influence of sex, maturity and reproduction on the contamination of the demersal fish Merluccius merluccius by organochlorine compounds. Polychlorinated biphenyls (PCBs) and p,p'DDE were quantified in muscle, liver and gonads of female and male hakes collected in the Gulf of Lions in 2004 and 2005. Observed levels appeared higher than the population of the Bay of Biscay and lower than the population of the Thyrrenian Sea. Contaminant fingerprints were roughly constant whatever the studied organ and the hake biological condition. Concentrations varied significantly according to the sex and maturity of hakes. Mature specimens were more contaminated than immature, and males presented higher levels than females. This sex effect can be linked to a lower growth rate of males, and a contaminant elimination during female spawning. Gonadal contamination depends on the importance of lipid content and increases with the maturation degree. Although the main organ of energy and PCB storage is the liver, muscle appears as the main contributor to the gonad contamination.

An autonomous nutrient analyzer for oceanic long-term in situ biogeochemical monitoring.

An autonomous nutrient analyzer in situ (ANAIS) has been developed to monitor nitrate, silicate, and phosphate concentrations while deployed at sea at pressure (down to 1000 m). Detection is made by spectrophotometry. The instrument uses solenoid-driven diaphragm pumps to propel the sample, the standards, and the reagents through a microconduit, flow injection-style thermostated manifold. The analyzers are placed in an equipressure container filled with oil. The analyzers operate until a pressure of 100 bar and show a linear response up to 40 microM nitrate, 150 microM silicate, and 5 microM phosphate with a detection limit less than 0.1, 0.5, and 0.1 microM and an accuracy of 1, 1, and 3% for nitrate, silicate, and phosphate, respectively. The measurement protocol includes three steps over 13 min: rinsing with the sample stream, reagents introduction, and absorbance detection. Field tests comprise ANAIS nitrate, silicate, and phosphate testing alone in the surface ocean. Phosphate results are not yet fully satisfactory. The instrument implemented on top of a YOYO vertical eulerian profiler was then deployed successfully in the northwestern Mediterranean Sea acquiring 30 nitrate profiles between 200 and 1100 m over a 15-day period. This chemical analyzer can be a valuable observing asset adapted on any type of oceanographic platform.