ALBERT

Description: A method was devised for analysing small discrete gas samples (50 mL syringe) by cavity ring-down spectroscopy (CRDS). Measurements were accomplished by inletting 50 mL syringed samples into an isotopic-CO2 CRDS analyser (Picarro G2131-i) between baseline readings of a reference air standard, which produced sharp peaks in the CRDS data feed. A custom software script was developed to manage the measurement process and aggregate sample data in real time. The method was successfully tested with CO2 mole fractions (xCO2) ranging from    20 000 ppm and δ13C–CO2 values from −100 up to +30 000 ‰ in comparison to VPDB (Vienna Pee Dee Belemnite). Throughput was typically 10 samples h−1, with 13 h−1 possible under ideal conditions. The measurement failure rate in routine use was ca. 1 %. Calibration to correct for memory effects was performed with gravimetric gas standards ranging from 0.05 to 2109 ppm xCO2 and δ13C–CO2 levels varying from −27.3 to +21 740 ‰. Repeatability tests demonstrated that method precision for 50 mL samples was ca. 0.05 % in xCO2 and 0.15 ‰ in δ13C–CO2 for CO2 compositions from 300 to 2000 ppm with natural abundance 13C. Long-term method consistency was tested over a 9-month period, with results showing no systematic measurement drift over time. Standardised analysis of discrete gas samples expands the scope of application for isotopic-CO2 CRDS and enhances its potential for replacing conventional isotope ratio measurement techniques. Our method involves minimal set-up costs and can be readily implemented in Picarro G2131-i and G2201-i analysers or tailored for use with other CRDS instruments and trace gases.

Description: Lake Chala (3°19′ S, 37°42′ E) is a steep-sided crater lake situated in equatorial East Africa, a tropical semiarid area with a bimodal rainfall pattern. Plants in this region are exposed to a prolonged dry season, and we investigated if (1) these plants show spatial variability and temporal shifts in their water source use; (2) seasonal differences in the isotopic composition of precipitation are reflected in xylem water; and (3) plant family, growth form, leaf phenology, habitat and season influence the xylem-to-leaf water deuterium enrichment. In this study, the δ2H and δ18O of precipitation, lake water, groundwater, plant xylem water and plant leaf water were measured across different plant species, seasons and plant habitats in the vicinity of Lake Chala. We found that plants rely mostly on water from the short rains falling from October to December (northeastern monsoon), as these recharge the soil after the long dry season. This plant-available, static water pool is only slightly replenished by the long rains falling from February to May (southeastern monsoon), in agreement with the two water worlds hypothesis, according to which plants rely on a static water pool while a mobile water pool recharges the groundwater. Spatial variability in water resource use exists in the study region, with plants at the lakeshore relying on a water source admixed with lake water. Leaf phenology does not affect water resource use. According to our results, plant species and their associated leaf phenology are the primary factors influencing the enrichment in deuterium from xylem water to leaf water (εl/x), with deciduous species giving the highest enrichment, while growth form and season have negligible effects. Our observations have important implications for the interpretation of δ2H of plant leaf wax n-alkanes (δ2Hwax) from paleohydrological records in tropical East Africa, given that the temporal variability in the isotopic composition of precipitation is not reflected in xylem water and that leaf water deuterium enrichment is a key factor in shaping δ2Hwax. The large interspecies variability in xylem–leaf enrichment (24 ± 28 ‰) is potentially troublesome, taking into account the likelihood of changes in species assemblage with climate shifts.

Description: The effect of inorganic nutrients on planktonic assemblages has traditionally relied on concentrations rather than estimates of nutrient supply. We combined a novel dataset of hydrographic properties, turbulent mixing, nutrient concentration, and picoplankton community composition with the aims of (i) quantifying the role of temperature, light, and nitrate fluxes as factors controlling the distribution of autotrophic and heterotrophic picoplankton subgroups, as determined by flow cytometry, and (ii) describing the ecological niches of the various components of the picoplankton community. Data were collected at 97 stations in the Atlantic Ocean, including tropical and subtropical open-ocean waters, the northwestern Mediterranean Sea, and the Galician coastal upwelling system of the northwest Iberian Peninsula. A generalized additive model (GAM) approach was used to predict depth-integrated biomass of each picoplankton subgroup based on three niche predictors: sea surface temperature, averaged daily surface irradiance, and the transport of nitrate into the euphotic zone, through both diffusion and advection. In addition, niche overlap among different picoplankton subgroups was computed using nonparametric kernel density functions. Temperature and nitrate supply were more relevant than light in predicting the biomass of most picoplankton subgroups, except for Prochlorococcus and low-nucleic-acid (LNA) prokaryotes, for which irradiance also played a significant role. Nitrate supply was the only factor that allowed the distinction among the ecological niches of all autotrophic and heterotrophic picoplankton subgroups. Prochlorococcus and LNA prokaryotes were more abundant in warmer waters (〉20 ∘C) where the nitrate fluxes were low, whereas Synechococcus and high-nucleic-acid (HNA) prokaryotes prevailed mainly in cooler environments characterized by intermediate or high levels of nitrate supply. Finally, the niche of picoeukaryotes was defined by low temperatures and high nitrate supply. These results support the key role of nitrate supply, as it not only promotes the growth of large phytoplankton, but it also controls the structure of marine picoplankton communities.

Description: Monomeric organic nitrogen (N) such as free amino acids (fAA) is an important resource for both plants and soil microorganisms and is, furthermore, a source of ammonium (NH4+) via microbial fAA mineralization. We compared gross fAA dynamics with gross N mineralization in a Dutch heathland soil using 15N labelling. A special focus was made on the effects of climate change factors warming and drought, followed by rewetting. Our aims were to: (1) compare fAA mineralization (NH4+ production from fAAs) with gross N mineralization, (2) assess gross fAA production rate (depolymerization) and turnover time relative to gross N mineralization rate, and (3) assess the effects of warming and drought on these rates. The turnover of fAA in the soil was ca. 3 h, which is almost two orders of magnitude faster than that of NH4+ (i.e. ca. 4 days). This suggests that fAAs is an extensively used resource by soil microorganisms. In control soil (i.e. no climatic treatment), the gross N mineralization rate (10 ± 2.9 μg N g−1 day−1) was eight-times smaller than the summed gross fAA production rate of five AAs (alanine, valine, leucine, isoleucine, proline: 127.4 to 25.0 μg N g−1 day−1). Gross fAA mineralization (3.4 ± 0.2 μg N g−1 day−1) contributed by 34% to the gross N mineralization rate and is, thus, an important component of N mineralization. In the drought treatment, gross fAA production was reduced by 65% and gross fAA mineralization by 41%, compared to control. On the other hand, gross N mineralization was unaffected by drought, indicating an increased mineralization of other soil organic nitrogen (SON) components. Warming did not significantly affect N transformations, even though that gross fAA production was more than halved. Overall our results suggest that heathland soil exposed to droughts has a shift in the composition of the SON being mineralized. Furthermore, compared to agricultural soils, fAA mineralization was relatively less important in the investigated heathland. This indicates a more complex mineralization dynamics in semi-natural ecosystems.

Description: The depolymerization of soil organic matter, such as proteins and (oligo-)peptides, into monomers (e.g. amino acids) is currently considered to be the rate-limiting step for nitrogen (N) availability in terrestrial ecosystems. The mineralization of free amino acids (FAAs), liberated by the depolymerization of peptides, is an important fraction of the total mineralization of organic N. Hence, the accurate assessment of peptide depolymerization and FAA mineralization rates is important in order to gain a better process-based understanding of the soil N cycle. In this paper, we present an extended numerical 15N tracing model Ntrace, which incorporates the FAA pool and related N processes in order to provide a more robust and simultaneous quantification of depolymerization and gross mineralization rates of FAAs and soil organic N. We discuss analytical and numerical approaches for two forest soils, suggest improvements of the experimental work for future studies, and conclude that (i) when about half of all depolymerized peptide N is directly mineralized, FAA mineralization can be as important a rate-limiting step for total gross N mineralization as peptide depolymerization rate; (ii) gross FAA mineralization and FAA immobilization rates can be used to develop FAA use efficiency (NUEFAA), which can reveal microbial N or carbon (C) limitation.

Description: Monomeric organic nitrogen (N) compounds such as free amino acids (FAAs) are an important resource for both plants and soil microorganisms and a source of ammonium (NH4+) via microbial FAA mineralization. We compared gross FAA dynamics with gross N mineralization in a Dutch heathland soil using a 15N tracing technique. A special focus was made on the effects of climate change factors warming and drought, followed by rewetting. Our aims were to (1) compare FAA mineralization (NH4+ production from FAAs) with gross N mineralization, (2) assess gross FAA production rate (depolymerization) and turnover time relative to gross N mineralization rate, and (3) assess the effects of a 14 years of warming and drought treatment on these rates. The turnover of FAA in the soil was ca. 3 h, which is almost 2 orders of magnitude faster than that of NH4+ (i.e. ca. 4 days). This suggests that FAA is an extensively used resource by soil microorganisms. In control soil (i.e. no climatic treatment), the gross N mineralization rate (10 ± 2.9 μg N g−1 day−1) was 8 times smaller than the total gross FAA production rate of five AAs (alanine, valine, leucine, isoleucine, proline: 127.4 to 25.0 μg N g−1 day−1). Gross FAA mineralization (3.4 ± 0.2 μg N g−1 day−1) contributed 34% to the gross N mineralization rate and is therefore an important component of N mineralization. In the drought treatment, a 6–29% reduction in annual precipitation caused a decrease of gross FAA production by 65% and of gross FAA mineralization by 41% compared to control. On the other hand, gross N mineralization was unaffected by drought, indicating an increased mineralization of other soil organic nitrogen (SON) components. A 0.5–1.5 °C warming did not significantly affect N transformations, even though gross FAA production declined. Overall our results suggest that in heathland soil exposed to droughts a different type of SON pool is mineralized. Furthermore, compared to agricultural soils, FAA mineralization was relatively less important in the investigated heathland. This indicates more complex mineralization dynamics in semi-natural ecosystems.

Description: Marine N2 fixing microorganisms, termed diazotrophs, are a key functional group in marine pelagic ecosystems. The biological fixation of dinitrogen (N2) to bioavailable nitrogen provides an important new source of nitrogen for pelagic marine ecosystems and influences primary productivity and organic matter export to the deep ocean. As one of a series of efforts to collect biomass and rates specific to different phytoplankton functional groups, we have constructed a database on diazotrophic organisms in the global pelagic upper ocean by compiling about 12 000 direct field measurements of cyanobacterial diazotroph abundances (based on microscopic cell counts or qPCR assays targeting the nifH genes) and N2 fixation rates. Biomass conversion factors are estimated based on cell sizes to convert abundance data to diazotrophic biomass. The database is limited spatially, lacking large regions of the ocean especially in the Indian Ocean. The data are approximately log-normal distributed, and large variances exist in most sub-databases with non-zero values differing 5 to 8 orders of magnitude. Reporting the geometric mean and the range of one geometric standard error below and above the geometric mean, the pelagic N2 fixation rate in the global ocean is estimated to be 62 (52–73) Tg N yr−1 and the pelagic diazotrophic biomass in the global ocean is estimated to be 2.1 (1.4–3.1) Tg C from cell counts and to 89 (43–150) Tg C from nifH-based abundances. Reporting the arithmetic mean and one standard error instead, these three global estimates are 140 ± 9.2 Tg N yr−1, 18 ± 1.8 Tg C and 590 ± 70 Tg C, respectively. Uncertainties related to biomass conversion factors can change the estimate of geometric mean pelagic diazotrophic biomass in the global ocean by about ±70%. It was recently established that the most commonly applied method used to measure N2 fixation has underestimated the true rates. As a result, one can expect that future rate measurements will shift the mean N2 fixation rate upward and may result in significantly higher estimates for the global N2 fixation. The evolving database can nevertheless be used to study spatial and temporal distributions and variations of marine N2 fixation, to validate geochemical estimates and to parameterize and validate biogeochemical models, keeping in mind that future rate measurements may rise in the future. The database is stored in PANGAEA (doi:10.1594/PANGAEA.774851).

Description: Am nördlichen Harzrand zwischen Benzingerode und Heimburg (Sachsen-Anhalt) konnten bei archäologischen Ausgrabungen mehrere bis zu 100 m lange Aufschlüsse in pleistozänen und holozänen Sedimenten des Hellbach-Schwemmfächers bearbeitet werden. Über pleistozänen Sedimenten eines ca. 2 km breiten Schwemmfächers mit Eiskeilpseudomorphosen, Kryoturbationserscheinungen sowie zentimetermächtigen Lösslagen, sind verschiedene holozäne Kolluvien, Auesedimente und Bodenbildungen auf einem kleineren, ca. 200 m breiten Schwemmfächer abgelagert worden bzw. entstanden. Stellenweise vorhandene Schwarzerdereste sowie mit schwarzem Bodenmaterial gefüllte Pfosten- und Vorratsgruben unterschiedlicher vorgeschichtlicher Epochen deuten auf eine relativ weite Verbreitung von spätpleistozänen und frühholozänen Schwarzerden in der Region hin. Im Auenbereich finden sich an der Basis der holozänen Kolluvien Reste von schwarzen, humosen, stark tonigen Horizonten mit einem lössähnlichen Sediment im Liegenden. Ob es sich hierbei um in situ gebildete Schwarzerden bzw. Schwarze Auenböden oder um anthropogene, durch Brandwirtschaftsweisen geschaffene, schwarze Horizonte handelt, ist noch unklar. Holzkohle aus dem schwarzen Horizont konnte auf rund 5.500 v. Chr. datiert werden. Das lössähnliche Sediment im Liegenden ergab OSL-Alter von ca. 5.910 v. Chr. (7,9 ± 0,5 ka). Nach Ende dieser Stabilitätsphase kam es zu einer oder mehreren größeren Überflutungen des damaligen Auenbereichs. In dieser Aktivitätsphase wurde der schwarze Horizont gekappt und zunächst mit Grobmaterial, später von einer meist 10-20 cm mächtigen feinmaterialreichen, dunkelbraunen Sedimentschicht überlagert. Diese Schicht bildete für längere Zeit die Oberfläche, enthält kaiserzeitliche Funde in situ und wird im Hangenden von gröberen Sedimenten und mächtigen, zweiphasigen mittelalterlichen Auelehmen abgedeckt. Rinnen im jüngsten Auelehm enthalten ziegel- und kalksteinreichen Schotter und repräsentieren vermutlich den letzten Lauf des Hellbachs vor seiner Begradigung in der Mitte des 19. Jahrhunderts. Nach den vorliegenden Befunden ist ein Zusammenhang zwischen den einzelnen fluvialen Aktivitätsphasen und der Besiedlung und Wirtschaftsweise im Einzugsgebiet des Hellbaches sehr wahrscheinlich, kann jedoch nicht zweifelsfrei nachgewiesen werden.

Description: Phytoplankton identification and abundance data are now commonly feeding plankton distribution databases worldwide. This study is a first attempt to compile the largest possible body of data available from different databases as well as from individual published or unpublished datasets regarding diatom distribution in the world ocean. The data obtained originate from time series studies as well as spatial studies. This effort is supported by the Marine Ecosystem Model Inter-Comparison Project (MAREMIP), which aims at building consistent datasets for the main Plankton Functional Types (PFT) in order to help validate biogeochemical ocean models by using carbon (C) biomass derived from abundance data. In this study we collected over 293 000 individual geo-referenced data points with diatom abundances from bottle and net sampling. Sampling site distribution was not homogeneous, with 58% of data in the Atlantic, 20% in the Arctic, 12% in the Pacific, 8% in the Indian and 1% in the Southern Ocean. A total of 136 different genera and 607 different species were identified after spell checking and name correction. Only a small fraction of these data were also documented for biovolumes and an even smaller fraction was converted to C biomass. As it is virtually impossible to reconstruct everyone's method for biovolume calculation, which is usually not indicated in the datasets, we decided to undertake the effort to document, for every distinct species, the minimum and maximum cell dimensions, and to convert all the available abundance data into biovolumes and C biomass using a single standardized method. Statistical correction of the database was also adopted to exclude potential outliers and suspicious data points. The final database contains 90 648 data points with converted C biomass. Diatom C biomass calculated from cell sizes spans over eight orders of magnitude. The mean diatom biomass for individual locations, dates and depths is 141.19 μg C l−1, while the median value is 11.16 μg C l−1. Regarding biomass distribution, 19% of data are in the range 0–1 μg C l−1, 29% in the range 1–10 μg C l−1, 31% in the range 10–100 μg C l−1, 18% in the range 100–1000 μg C l−1, and only 3% 〉1000 μg C l−1. Interestingly, less than 50 species contributed to 〉90% of global biomass, among which centric species were dominant. Thus, placing significant efforts on cell size measurements, process studies and C quota calculations on these species should considerably improve biomass estimates in the upcoming years. A first-order estimate of the diatom biomass for the global ocean ranges from 449 to 558 Tg C, which converts to 5 to 6 Tmol Si and to an average Si biomass turnover rate of 0.11 to 0.20 d−1. Link to the dataset: preliminary link http://doi.pangaea.de/10.1594/PANGAEA.777384.

Description: Marine N2 fixing microorganisms, termed diazotrophs, are a key functional group in marine pelagic ecosystems. The biological fixation of dinitrogen (N2) to bioavailable nitrogen provides an important new source of nitrogen for pelagic marine ecosystems and influences primary productivity and organic matter export to the deep ocean. As one of a series of efforts to collect biomass and rates specific to different phytoplankton functional groups, we have constructed a database on diazotrophic organisms in the global pelagic upper ocean by compiling about 12 000 direct field measurements of cyanobacterial diazotroph abundances (based on microscopic cell counts or qPCR assays targeting the nifH genes) and N2 fixation rates. Biomass conversion factors are estimated based on cell sizes to convert abundance data to diazotrophic biomass. The database is limited spatially, lacking large regions of the ocean especially in the Indian Ocean. The data are approximately log-normal distributed, and large variances exist in most sub-databases with non-zero values differing 5 to 8 orders of magnitude. Lower mean N2 fixation rate was found in the North Atlantic Ocean than the Pacific Ocean. Reporting the geometric mean and the range of one geometric standard error below and above the geometric mean, the pelagic N2 fixation rate in the global ocean is estimated to be 62 (53–73) Tg N yr−1 and the pelagic diazotrophic biomass in the global ocean is estimated to be 4.7 (2.3–9.6) Tg C from cell counts and to 89 (40–200) Tg C from nifH-based abundances. Uncertainties related to biomass conversion factors can change the estimate of geometric mean pelagic diazotrophic biomass in the global ocean by about ±70%. This evolving database can be used to study spatial and temporal distributions and variations of marine N2 fixation, to validate geochemical estimates and to parameterize and validate biogeochemical models. The database is stored in PANGAEA (http://doi.pangaea.de/10.1594/PANGAEA.774851).