Evaluation of an indirect method for leaf area index determination in the vineyard: Combined effects of cultivar, year and training system

The performance of the plant canopy analyzer LAI-2000 was evaluated in three seasons to estimate vineyard LAI (leafarea index) in the Bordeaux area. Measurements were made in a vertical-trellised vineyard with 5555 Semillon and Sauvignon blanc vines per ha, and with 2525 lyre-trained Cabernet franc vines per ha. Various LAI-2000 sampling protocols were tested and the data compared with destructive determinations. While the results from single vines a ere not satisfactory, very good relationships were obtained if five consecutive vines were used. In the vertical-trellised vineyard, a very accurate and direct estimate of LAI could be obtained with the LAI-2000 using a combination of "parallel" and "diagonal" sampling protocol. LAI values obtained by direct and LAI-2000 had a 1:1 correspondence and were identical for both, year and cultivar. For the lyre system, a local calibration was required, mainly because of the contribution of shoots, perennial vine parts and posts. This calibration was easily obtained by progressively removing leaves from the vines

The impact of terrigeneous inputs on the Bay of Ouinne (New Caledonia) phytoplankton communities : a spectrofluorometric and microscopic approach

The impact of terrigeneous inputs on the phytoplankton composition was studied during a 2.5 months daily survey in the Bay of Ouinne, a deep cove on the south-eastern coast of New Caledonia. Surface waters benefited from nutrients originating from nearby land drainage and the Ouinne river outflow during periods of heavy rain. The nutrient composition mirrored the composition of the drained soils, with concentrations reaching 3-4 mu M for nitrate and 0.13 mu M for phosphate at the river mouth. In addition to nutrient inputs, significant quantities of particulate matter (inorganic and organic compounds) were discharged into the lagoon during heavy rain periods, resulting in transitory decreases of the photic layer depth and enrichments of the water column through remineralization processes. Changes in contributions of the main phytoplankton groups in response to terrigeneous inputs were shown by chlorophyll and phycobiliprotein spectrofluorometric analyses. While dry periods were marked by the dominance of pico-(Prochlorococcus, and high-phycourobilin (PUB) Synechococcus) and microcyanobacteria (Trichodesmium spp.), developments of various eukaryote populations resulted from land drainage occurring during the wet periods. This was indicated by the increase of accessory chlorophyll pigments that doubled at a depth of 15 m: chlorophyll b (chlorophytes), chlorophyll c(1) + c(2) (associated with diatoms and dinoflagellates), chlorophyll c(3) (associated with c(1) and/or c(2) in prymnesiophytes, chrysophytes and/or pelagophytes). In addition, Synechococcus with a high phycoerythrobilin (PEB) content also appeared to be stimulated by river outputs. Finally, microscopic observations of the > 35 mu m net plankton confirmed the greater presence of diatoms and dinoflagellates during periods of rain compared to Trichodesmium, particularly in the surface layer. (c) 2005 Elsevier Ltd. All rights reserved

Proceedings of the international colloquium photosynthesis and remote sensing

The in vivo specific absorption coefficient of phytoplankton a*ph (lambda) was measured along an equatorial transect in the Pacific Ocean during the JGOFS-cruise in Octobre 1994 in order to validate bio-optical models of primary production. The fiber filter technique was used on board, as well as spectrofluorometry for pigment determination and flow cytometry for cells counting. The a*ph (435-441 nm) walues strongly decreased from oligotrophic to mesotrophic waters (between 170°E and 153°W). This zonal variation reflected a change in phytoplankton composition, dominated by #Prochlorococcus$ in the oligotrophic zone and by picoeucaryotes in the mesotrophic one. Such variations in a*ph have to be taken into account for estimating primary production of the equatorial Pacific Ocean from ocean colour imagery. (Résumé d'auteur

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

Nitrogen cost minimization is promoted by structural changes in the transcriptome of N-deprived Prochlorococcus cells

Prochlorococcus is a globally abundant marine cyanobacterium with many adaptations that reduce cellular nutrient requirements, facilitating growth in its nutrient-poor environment. One such genomic adaptation is the preferential utilization of amino acids containing fewer N-atoms, which minimizes cellular nitrogen requirements. We predicted that transcriptional regulation might further reduce cellular N budgets during transient N limitation. To explore this, we compared transcription start sites (TSSs) in Prochlorococcus MED4 under N-deprived and N-replete conditions. Of 64 genes with primary and internal TSSs in both conditions, N-deprived cells initiated transcription downstream of primary TSSs more frequently than N-replete cells. Additionally, 117 genes with only an internal TSS demonstrated increased internal transcription under N-deprivation. These shortened transcripts encode predicted proteins with an average of 21% less N content compared to full-length transcripts. We hypothesized that low translation rates, which afford greater control over protein abundances, would be beneficial to relatively slow-growing organisms like Prochlorococcus. Consistent with this idea, we found that Prochlorococcus exhibits greater usage of glycine-glycine motifs, which causes translational pausing, when compared to faster growing microbes. Our findings indicate that structural changes occur within the Prochlorococcus MED4 transcriptome during N-deprivation, potentially altering the size and structure of proteins expressed under nutrient limitation.Gordon and Betty Moore Foundation (Grant GBMF495)Simons Foundation (Award 329108)National Science Foundation (U.S.) (Grant DBI-0424599

Organic waste as a sustainable feedstock for platform chemicals

Biorefineries have been established since the 1980s for biofuel production, and there has been a switch lately from first to second generation feedstocks in order to avoid the food versus fuel dilemma. To a lesser extent, many opportunities have been investigated for producing chemicals from biomass using by-products of the present biorefineries, simple waste streams. Current facilities apply intensive pre-treatments to deal with single substrate types such as carbohydrates. However, most organic streams such as municipal solid waste or algal blooms present a high complexity and variable mixture of molecules, which makes specific compound production and separation difficult. Here we focus on flexible anaerobic fermentation and hydrothermal processes that can treat complex biomass as a whole to obtain a range of products within an integrated biorefinery concept

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

Combined full shape analysis of BOSS galaxies and eBOSS quasars using an iterative emulator

Standard full-shape clustering analyses in Fourier space rely on a fixed power spectrum template, defined at the fiducial cosmology used to convert redshifts into distances, and compress the cosmological information into the Alcock-Paczynski parameters and the linear growth rate of structure. In this paper, we propose an analysis method that operates directly in the cosmology parameter space and varies the power spectrum template accordingly at each tested point. Predictions for the power spectrum multipoles from the TNS model are computed at different cosmologies in the framework of $\Lambda \rm{CDM}$. Applied to the final eBOSS QSO and LRG samples together with the low-z DR12 BOSS galaxy sample, our analysis results in a set of constraints on the cosmological parameters $\Omega_{\rm cdm}$, $H_0$, $\sigma_8$, $\Omega_{\rm b}$ and $n_s$. To reduce the number of computed models, we construct an iterative process to sample the likelihood surface, where each iteration consists of a Gaussian process regression. This method is validated with mocks from N-body simulations. From the combined analysis of the (e)BOSS data, we obtain the following constraints: $\sigma_8=0.877\pm 0.049$ and $\Omega_{\rm m}=0.304^{+0.016}_{-0.010}$ without any external prior. The eBOSS quasar sample alone shows a $3.1\sigma$ discrepancy compared to the Planck prediction.Comment: 13 pages, 7 figure