Dynamics and controls of heterotrophic prokaryotic production in the western tropical South Pacific Ocean: links with diazotrophic and photosynthetic activity

Heterotrophic prokaryotic production (BP) was studied in the western tropical South Pacific (WTSP) using the leucine technique, revealing spatial and temporal variability within the region. Integrated over the euphotic zone, BP ranged from 58 to 120 mg C m−2 d−1 within the Melanesian Archipelago, and from 31 to 50 mg C m−2 d−1 within the western subtropical gyre. The collapse of a bloom was followed during 6 days in the south of Vanuatu using a Lagrangian sampling strategy. During this period, rapid evolution was observed in the three main parameters influencing the metabolic state: BP, primary production (PP) and bacterial growth efficiency. With N2 fixation being one of the most important fluxes fueling new production, we explored relationships between BP, PP and N2 fixation rates over the WTSP. The contribution of N2 fixation rates to bacterial nitrogen demand ranged from 3 to 81 %. BP variability was better explained by the variability of N2 fixation rates than by that of PP in surface waters of the Melanesian Archipelago, which were characterized by N-depleted layers and low DIP turnover times (TDIP  100 h), deeper in the Melanesian Archipelago, or within the entire euphotic zone in the subtropical gyre. The bacterial carbon demand to gross primary production ratio ranged from 0.75 to 3.1. These values are discussed in the framework of various assumptions and conversion factors used to estimate this ratio, including the methodological errors, the daily variability of BP, the bacterial growth efficiency and one bias so far not considered: the ability for Prochlorococcus to assimilate leucine in the dark

An algorithm for detecting <i>Trichodesmium</i> surface blooms in the South Western Tropical Pacific

<i>Trichodesmium</i>, a major colonial cyanobacterial nitrogen fixer, forms large blooms in NO₃-depleted tropical oceans and enhances CO₂ sequestration by the ocean due to its ability to fix dissolved dinitrogen. Thus, its importance in C and N cycles requires better estimates of its distribution at basin to global scales. However, existing algorithms to detect them from satellite have not yet been successful in the South Western Tropical Pacific (SP). Here, a novel algorithm (TRICHOdesmium SATellite) based on radiance anomaly spectra (RAS) observed in SeaWiFS imagery, is used to detect <i>Trichodesmium</i> during the austral summertime in the SP (5° S–25° S 160° E–170° W). Selected pixels are characterized by a restricted range of parameters quantifying RAS spectra (e.g. slope, intercept, curvature). The fraction of valid (non-cloudy) pixels identified as <i>Trichodesmium</i> surface blooms in the region is low (between 0.01 and 0.2 %), but is about 100 times higher than deduced from previous algorithms. At daily scales in the SP, this fraction represents a total ocean surface area varying from 16 to 48 km² in Winter and from 200 to 1000 km² in Summer (and at monthly scale, from 500 to 1000 km² in Winter and from 3100 to 10 890 km² in Summer with a maximum of 26 432 km² in January 1999). The daily distribution of <i>Trichodesmium</i> surface accumulations in the SP detected by TRICHOSAT is presented for the period 1998–2010 which demonstrates that the number of selected pixels peaks in November–February each year, consistent with field observations. This approach was validated with in situ observations of <i>Trichodesmium</i> surface accumulations in the Melanesian archipelago around New Caledonia, Vanuatu and Fiji Islands for the same period

α,β-D-Constrained Nucleic Acids Are Strong Terminators of Thermostable DNA Polymerases in Polymerase Chain Reaction

(SC5′, RP) α,β-D- Constrained Nucleic Acids (CNA) are dinucleotide building blocks that can feature either B-type torsional angle values or non-canonical values, depending on their 5′C and P absolute stereochemistry. These CNA are modified neither on the nucleobase nor on the sugar structure and therefore represent a new class of nucleotide with specific chemical and structural characteristics. They promote marked bending in a single stranded DNA so as to preorganize it into a loop-like structure, and they have been shown to induce rigidity within oligonucleotides. Following their synthesis, studies performed on CNA have only focused on the constraints that this family of nucleotides introduced into DNA. On the assumption that bending in a DNA template may produce a terminator structure, we investigated whether CNA could be used as a new strong terminator of polymerization in PCR. We therefore assessed the efficiency of CNA as a terminator in PCR, using triethylene glycol phosphate units as a control. Analyses were performed by denaturing gel electrophoresis and several PCR products were further analysed by sequencing. The results showed that the incorporation of only one CNA was always skipped by the polymerases tested. On the other hand, two CNA units always stopped proofreading polymerases, such as Pfu DNA polymerase, as expected for a strong replication terminator. Non-proofreading enzymes, e.g. Taq DNA polymerase, did not recognize this modification as a strong terminator although it was predominantly stopped by this structure. In conclusion, this first functional use of CNA units shows that these modified nucleotides can be used as novel polymerization terminators of proofreading polymerases. Furthermore, our results lead us to propose that CNA and their derivatives could be useful tools for investigating the behaviour of different classes of polymerases

Molecular solids of actinide hexacyanoferrate: Structure and bonding

The hexacyanometallate family is well known in transition metal chemistry because the remarkable electronic delocalization along the metal-cyano-metal bond can be tuned in order to design systems that undergo a reversible and controlled change of their physical properties. We have been working for few years on the description of the molecular and electronic structure of materials formed with [Fe(CN)6]n- building blocks and actinide ions (An = Th, U, Np, Pu, Am) and have compared these new materials to those obtained with lanthanide cations at oxidation state +III. In order to evaluate the influence of the actinide coordination polyhedron on the three- dimensional molecular structure, both atomic number and formal oxidation state have been varied : oxidation states +III, +IV. EXAFS at both iron K edge and actinide LIII edge is the dedicated structural probe to obtain structural information on these systems. Data at both edges have been combined to obtain a three-dimensional model. In addition, qualitative electronic information has been gathered with two spectroscopic tools : UV-Near IR spectrophotometry and low energy XANES data that can probe each atom of the structural unit : Fe, C, N and An. Coupling these spectroscopic tools to theoretical calculations will lead in the future to a better description of bonding in these molecular solids. Of primary interest is the actinide cation ability to form ionic – covalent bonding as 5f orbitals are being filled by modification of oxidation state and/or atomic number

Mushy-Zone Rayleigh Number to Describe Macrosegregation and Channel Segregate Formation During Directional Solidification of Metallic Alloys

A recently defined mushy-zone Rayleigh number (R-aM) that includes side-branching contributions to the mushy-zone permeability has been examined for its correlation with the longitudinal macrosegregation and channel segregate formation. The Rayleigh number shows (1) a strong correlation between the extent of longitudinal macrosegregation and increase in the mushy-zone convection and (2) a good ability to predict the formation of channel segregates during directional solidification

Molecular diagnosis of Pseudoterranova decipiens s.s in human, France

Background: Anisakis and Pseudoterranova are the main genera involved in human infections caused by nematodes of the Anisakidae family. Species identification is complicated due to the lack of differential morphological characteristics at the larval stage, thus requiring molecular differentiation. Pseudoterranova larvae ingested through raw fish are spontaneously eliminated in most cases, but mechanical removal by means of endoscopy might be required. To date, only very few cases of Pseudoterranova infection have been reported in France. Case presentation: A 19-year-old woman from Northeastern France detected, while brushing her teeth, a larva exiting through her mouth. The patient who presented with headache, diarrhea, and abdominal cramps reported having eaten baked cod. The worm was a fourth-stage larva with a size of 22 × 0.9 mm, and molecular biology identified it as Pseudoterranova decipiens sensu stricto (s. s.). In a second P. decipiens infection case, occurring a few months later, a worm exited through the patient’s nose after she had eaten raw sea bream. Conclusion: These two cases demonstrate that Pseudoterranova infection is not uncommon among French patients. Therefore, molecular techniques should be more widely applied for a better characterization of anisakidosis epidemiology in France

An algorithm for detecting Trichodesmium surface blooms in the South Western Tropical Pacific

Trichodesmium, a major colonial cyanobacterial nitrogen fixer, forms large blooms in NO₃-depleted tropical oceans and enhances CO₂ sequestration by the ocean due to its ability to fix dissolved dinitrogen. Thus, its importance in C and N cycles requires better estimates of its distribution at basin to global scales. However, existing algorithms to detect them from satellite have not yet been successful in the South Western Tropical Pacific (SP). Here, a novel algorithm (TRICHOdesmium SATellite) based on radiance anomaly spectra (RAS) observed in SeaWiFS imagery, is used to detect Trichodesmium during the austral summertime in the SP (5° S–25° S 160° E–170° W). Selected pixels are characterized by a restricted range of parameters quantifying RAS spectra (e.g. slope, intercept, curvature). The fraction of valid (non-cloudy) pixels identified as Trichodesmium surface blooms in the region is low (between 0.01 and 0.2 %), but is about 100 times higher than deduced from previous algorithms. At daily scales in the SP, this fraction represents a total ocean surface area varying from 16 to 48 km² in Winter and from 200 to 1000 km² in Summer (and at monthly scale, from 500 to 1000 km² in Winter and from 3100 to 10 890 km² in Summer with a maximum of 26 432 km² in January 1999). The daily distribution of Trichodesmium surface accumulations in the SP detected by TRICHOSAT is presented for the period 1998–2010 which demonstrates that the number of selected pixels peaks in November–February each year, consistent with field observations. This approach was validated with in situ observations of Trichodesmium surface accumulations in the Melanesian archipelago around New Caledonia, Vanuatu and Fiji Islands for the same period

Pattern formation in directional solidification under shear flow. I: Linear stability analysis and basic patterns

An asymptotic interface equation for directional solidification near the absolute stabiliy limit is extended by a nonlocal term describing a shear flow parallel to the interface. In the long-wave limit considered, the flow acts destabilizing on a planar interface. Moreover, linear stability analysis suggests that the morphology diagram is modified by the flow near the onset of the Mullins-Sekerka instability. Via numerical analysis, the bifurcation structure of the system is shown to change. Besides the known hexagonal cells, structures consisting of stripes arise. Due to its symmetry-breaking properties, the flow term induces a lateral drift of the whole pattern, once the instability has become active. The drift velocity is measured numerically and described analytically in the framework of a linear analysis. At large flow strength, the linear description breaks down, which is accompanied by a transition to flow-dominated morphologies, described in a companion paper. Small and intermediate flows lead to increased order in the lattice structure of the pattern, facilitating the elimination of defects. Locally oscillating structures appear closer to the instability threshold with flow than without.Comment: 20 pages, Latex, accepted for Physical Review

Primary Dendrite Distribution and Disorder During Directional Solidification of Pb-Sb Alloys

Pb-2.2 wt pct Sb and Pb-5.8 wt pet Sb alloys have been directionally solidified from a single-crystal seed with its [100] orientation parallel to the growth direction, to examine the primary dendrite distribution and disorder of the dendrite arrays. The dendrite distribution and ordering have been investigated using analysis techniques such as the Gauss-amplitude fit to the frequency distribution of nearest and higher-order spacings, minimum spanning tree (MST), Voronoi polygon, and Fourier transform (FT) of the dendrite centers. Since the arrangement of dendrites is driven by the requirement to accommodate side-branch growth along the (100) directions, the FT images of the fully developed dendrite centers contain spots which indicate this preferred alignment. A directional solidification distance of about three mushy-zone lengths is sufficient to ensure a steady-state dendritic array, in terms of reaching a constant mean primary spacing. However, local dendrite ordering continues throughout the directional solidification process. The interdendritic convection not only decreases the mean primary spacing, it also makes the dendrite array more disordered and reduces the ratio of the upper and lower spacing limits, as defined by the largest 5 pct and the smallest 5 pct of the population