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Undatable run on 2019-03-05 11:10:21. nsim=10000 bootpc=10 xfactor=0.1

Gene expression profile from gill and muscle tissue samples. Juvenile abalones were exposed to a temperature ramp (+3 °C day−1) under hypoxia (50% air saturation) and hypercapnia (~1000 μatm pCO2), both individually and in combination. Experiments are denoted as control (warming under normoxic normocapnia), hypoxia (warming under hypoxic normocapnia), hypercapnia (warming under normoxic hypercapnia, and combined (warming under hypoxic hypercapnia). The table is arranged to be used with the R package MCMC.qPCR (Matz et al., 2013).

This report attempts to fill that gap for two of the most important water-related issues facing the effects of climate variability and the steady degradation of the nation's water resources. The study reported here concluded that the El Niño-La Niña episode from 1997-2000 cost the country Ksh 290 billion (about 14 percent of GDP during that period). During El Niño-induced floods, this cost primarily arises from destruction of infrastructure such as roads, water supply infrastructure, and pipe networks. The largest costs incurred during the La Niña droughts (1998-2000) were from loss of industrial production and other costs arising from reduced hydropower generation, as well as from crop and livestock losses. These costs are felt throughout Kenyan society.

Watershed management has come to be recognized as a critical issue in the Nile Basin. Upstream land use can cause degradation and soil erosion, resulting in lower agricultural yields locally and causing sedimentation downstream. The increased sediment load causes economic problems by reducing water quality, and irrigation and hydropower potential, as well as increasing flooding. This note shows how, through Basin-wide cooperation, the Nile Basin Initiative (NBI) has led efforts to address these problems, developing successful projects to deliver real results to restore the Nile.

In a warming climate, higher temperatures are likely to modulate positively or negatively the effect of other environmental factors on biota, although such interactions are poorly documented. Here, we explore under controlled conditions the combined effects of two common stressors in freshwater ecosystems, higher temperature and sediment load, on the embryonic development of arctic charr (Salvelinus alpinus L.). In the warm treatment, embryos had a lower survival, a longer incubation period and a smaller body size with a bigger yolk sac volume (YSV). Our data show a significant interaction between temperature and sediment load with temperature increasing dramatically the negative effects of sediment load on fitness-related traits. In the climate change context, these findings highlight the importance of taking into account different thermal scenarios when examining the effect of environmental or anthropogenic stressors.

We freeze-dried and homogenized 44 samples of c. 0.7-1.8 g dry sediment from core PG1351 covering late glacials and interglacials of MIS 8 to MIS 5e, integrating sediment of 1 cm core depth. Temporal resolution of these samples ranges from 140 to 960 years per sample. For the period between 430 and 405 kyrs ago (end of MIS 12 to MIS 11c), 13 samples of 0.5-1.3 g of dry sediment from ICDP core 5011-1 were taken for MA analyses, integrating sediment of 2 cm core depth. Eight of these 13 samples are from the same core depths as were previously analysed for pollen (Melles et al., 2012). Temporal resolution of these samples varies between 200 and 970 years per sample comparable to core PG1351. Across all samples, temporal resolution is 333 ± 273 years per sample, giving centennial- to millennial scale averages. We extracted the polar lipids of all MA samples using a Dionex Accelerated Solvent Extraction system (ASE 350, ThermoFisher Scientific) at 100°C, 103 bar pressure and two extraction cycles (20 min static time) with 100 % methanol, after an ASE cycle with 100 % dichloromethane. For every sample sequence (n=13-18), we extracted a blank ASE cell and included it in all further steps. We added 60 ng of deuterated levoglucosan (C6H3D7O5; dLVG; Th. Geyer GmbH & Co. KG) as internal standard, and filtered the extract over a PTFE filter using acetonitrile and 5 % HPLC-grade water. We analysed the extracts with an Ultimate 3000 RS ultra-high performance liquid chromatograph (U-HPLC) with thermostated autosampler and column oven coupled to a Q Exactive Plus Orbitrap mass spectrometer (Quadrupole-Orbitrap MS; ThermoFisher Scientific) with heated electrospray injection (HESI) probe at GFZ Potsdam, using measurement conditions adapted from earlier studies (Hopmans et al., 2013;Schreuder et al., 2018;Dietze et al., 2019). Briefly, separation was achieved on two Xbridge BEH amide columns in series (2.1 x 150 mm, 3.5 um particle size) fitted with a 50 mm pre-column of the same material (Waters). The compounds were eluted (flow rate 0.2 mL min-1) with 100 % A for 15 minutes, followed by column cleaning with 100 % B for 15 min, and re-equilibration to starting conditions for 25 min. Eluent A was acetonitrile:water:triethylamine (92.5:7.5:0.01) and eluent B acetonitrile:water:triethylamine (70:30:0.01). HESI settings were as follows: sheath gas (N2) pressure 20 (arbitrary units), auxiliary gas (N2) pressure 3 (arbitrary units), auxiliary gas (N2) temperature of 50 ˚C, spray voltage -2.9 kV (negative ion mode), capillary temperature 300 °C, S-Lens 50 V. Detection was achieved by monitoring m/z 150-200 with a resolution of 280,000 ppm. Targeted data dependent MS2 (normalized collision energy 13 V) was performed on any signal within 10 ppm of m/z 161.0445 (calculated exact mass of deprotonated levoglucosan and its isomers) or m/z 168.0884 (calculated exact mass of deprotonated dLVG) with an isolation window of 0.4 m/z. The detection limit was 2.5 pg on column, based on injections of 0.5 to 5000 pg on column of authentic standards of LVG, MAN, and GAL (Santa Cruz Biotechnology) and dLVG. Integrations were performed on mass chromatograms within 3 ppm mass accuracy and corrected for relative response factors to dLVG (1.08 ± 0.10, 0.76 ± 0.10 and 0.24 ± 0.05 for LVG, MAN, and GAL, respectively), according to known authentic standard mixes injected before and after every measurement sequence and supported by characteristic isomer-specific MS² data. All samples were corrected by subtracting the maximum MA concentrations in the blank duplicates of each ASE sequence. To account for biases due to sediment properties and sedimentation rates, MA influxes (mass accumulation rates in ng cm-2 yr-1) were calculated by multiplying the concentrations (ng g-1) with the sample-specific dry bulk densities (Melles et al., 2007;Wennrich et al., 2016), and the sample's sedimentation rates (cm yr-1) using the age-depth models presented by Nowaczyk et al. (2013) for the the PG1351 and the ICDP-5011-1 cores.

The csv data file ���SAR_TBB.csv��� contains data on habitat characteristics and fishing effort of the Dutch beam trawl fleet by grid cells of 1 minute longitude * 1 minute latitude in the North Sea used to study the changes in trawling impact on the benthic ecosystem due to the transition from conventional beam trawling to pulse trawling. Habitat variables include %sand, %gravel, %mud, bed shear stress (N.m-2) and level 3 EUNIS habitat type. Fishing effort, expressed as the annual swept area ratio (area swept by the gear in km2 / surface area of the grid cell (km2)), is given for the total Dutch beam trawl fleet and for a subset of vessels holding a pulse license (PLH) when fishing with the conventional beam trawl gear (PLH.T.year) or with the innovative pulse trawl (PLH.P.year).

CzIPMR code to estimate the recovery time for Cystoseira zosteroides populations after a major disturbance at different temperature scenarios treatments. In addition, stochastic population growth rate (��s) and quasi-extinction probability at increasing frequency of two major disturbances at increasing temperature scenarios. These analyses correspond to the figures 4 and 5 of Capdevila et al. 2018 JEcol.MixedEffectsparamsParameter values needed for the Integral Projection Models used to model the life cycle and population dynamics of Cystoseira zosteroides. This includes seven demographic processes: 1.survival (��), 2.growth (��), 3.fertility (��), 4.recruits per capita (��(N)), 5.probability of settlement of recruits (��), 6.early survival of recruits (��s) and 7.recruits size probability distribution.IPMFunctionsFunctions required to run the CzIPM.R script. This script contains the description of the growth, survival and fecundity functions used to build the IPMs.1. The best-fitted model for survival (��) was a logistic mixed effect model including size as fixed factors and population nested in years as a random factor. 2. For growth (��), the best-fitted model was a linear mixed effect model, with size as fixed factor and population nested in year as random factor. 3. Fertility (��(z)), was estimated as the relation between reproductive status (reproductive vs. non-reproductive) and size with a binomial regression. 4. Recruitment per capita (��(N)) is density-dependent in C. zosteroides (Capdevila et al., 2015), so a generalized linear model with Poisson error distribution and a log-link function was fitted, correlating the recruit:adult ratio as a function of the adult density. 5. To model the effect of temperature on the probability of settlement (��) we used a generalized linear mixed models (GLMM), with a Poisson error distribution and a logit link function, the independent variable was the number of zygotes, temperature was treated as a fixed variable and we used the ID of each quadrat of the Petri dishes as a random variable. 6. To model the effect of temperature and time (fixed factors) on germling survival (��s), we used a GLMM with a binomial error distribution and a logit link function, with the ID of each quadrat of each Petri dish as a random variable to deal with the lack of independence between observations repeated at different times and a binomial error distribution was assumed to deal with the binary response variable (survive vs. die). 7. The size distribution of recruits was estimated as a normal probability function. In addition, the function required to project the density-dependent and stochastic IPMs is provided.modsumDensity-dependent function, relating the number of Cystoseira zosteroides recruits with the number of adults. It is a generalized linear model (GLM) with Poisson error distribution and a log-link function, correlating the recruit:adult ratio with the adult density. This file is needed to run the code CzIPM.R.settData on the impacts of temperature (16��C, 20��C and 24��C) on the settlement of Cystoseira zosteroides early stages. This file is needed to perform the projections in CzIPM.R code.survrecData on the impacts of the temperature treatments (16��C, 20��C and 24��C) to early survival of Cystoseira zosteroides. This file is required to run the code CzIPM.R. 1. Understanding the combined effects of global and local stressors is crucial for conservation and management, yet challenging due to the different scales at which these stressors operate. Here we examine the effects of one of the most pervasive threats to marine biodiversity, ocean warming, on the early life stages of the habitat-forming macroalga Cystoseira zosteroides, its long-term consequences for population resilience and its combined effect with physical stressors. 2. First, we performed a controlled laboratory experiment exploring the impacts of warming on early life stages. Settlement and survival of germlings were measured at 16��C (control), 20��C and 24��C and both processes were affected by increased temperatures. Then, we integrated this information into stochastic, density-dependent integral projection models (IPM). 3. Recovery time after a minor disturbance significantly increased in warmer scenarios. The stochastic population growth rate (��s) was not strongly affected by warming alone, as high adult survival compensated for thermal-induced recruitment failure. Nevertheless, warming coupled with recurrent physical disturbances had a strong impact on ��s and population viability. 4. Synthesis: The impact of warming effects on early stages may significantly decrease the natural ability of habitat-forming algae to rebound after major disturbances. These findings highlight that, in a global warming context, populations of deep-water macroalgae will become more vulnerable to further disturbances, and stress the need to incorporate abiotic interactions into demographic models.

This submission consists of 40 eddy covariance datasets collected from six shallow sites in the Baltic Sea over an 18 month period. Hourly fluxes were extracted from the high-density data streams and were used to compute daily rates of benthic metabolism (gross primary production (GPP), respiration (R), and net ecosystem metabolism (NEM); in mmol O2 m-2 d-1). These were converted to C assuming an O2 : C of 1.0 for GPP and R. A description of the flux data processing protocol is given in the manuscript. These datasets were used to compute annual rates of GPP, R, and NEM at each habitat site. The annual rates were then used to investigate (i) phototrophic biomass turnover rates, by comparing the GPP rates with standing phototrophic biomass measurements, and (ii) the regional importance of benthic metabolism, by upscaling the annual rates to habitat distribution maps. This dataset includes all data on standing biomass and habitat extent. Attard et al. LO LettersDaily benthic metabolism rates, annual integrated rates, biomass turnover rates, and spatial upscaling estimates presented in Attard et al. LO LettersMetadata template_Attard et alMetadata template for Attard et al. LO Letters dataset