ALBERT

Description: Tropical South America is one of the three main centres of the global, zonal overturning circulation of the equatorial atmosphere (generally termed the 'Walker' circulation1). Although this area plays a key role in global climate cycles, little is known about South American climate history. Here we describe sediment cores and down-hole logging results of deep drilling in the Salar de Uyuni, on the Bolivian Altiplano, located in the tropical Andes. We demonstrate that during the past 50,000 years the Altiplano underwent important changes in effective moisture at both orbital (20,000-year) and millennial timescales. Long-duration wet periods, such as the Last Glacial Maximum—marked in the drill core by continuous deposition of lacustrine sediments—appear to have occurred in phase with summer insolation maxima produced by the Earth's precessional cycle. Short-duration, millennial events correlate well with North Atlantic cold events, including Heinrich events 1 and 2, as well as the Younger Dryas episode. At both millennial and orbital timescales, cold sea surface temperatures in the high-latitude North Atlantic were coeval with wet conditions in tropical South America, suggesting a common forcing.

Description: Marine phytoplankton blooms are annual spring events that sustain active and diverse bloom-associated bacterial populations. Blooms vary considerably in terms of eukaryotic species composition and environmental conditions, but a limited number of heterotrophic bacterial lineages — primarily members of the Flavobacteriia, Alphaproteobacteria and Gammaproteobacteria — dominate these communities. In this Review, we discuss the central role that these bacteria have in transforming phytoplankton-derived organic matter and thus in biogeochemical nutrient cycling. On the basis of selected field and laboratory-based studies of flavobacteria and roseobacters, distinct metabolic strategies are emerging for these archetypal phytoplankton-associated taxa, which provide insights into the underlying mechanisms that dictate their behaviours during blooms.

Description: Owing to the turbulent nature of the ocean, mesoscale eddies are omnipresent. The impact of these transitory and approximately circular sea surface temperature fronts on the overlying atmosphere is not well known. Stationary fronts such as the Gulf Stream have been reported to lead to pronounced atmospheric changes1, 2. However, the impact of transient ocean eddies on the atmosphere has not been determined systematically, except on winds and to some extent clouds3, 4, 5, 6. Here, we examine the atmospheric conditions associated with over 600,000 individual eddies in the Southern Ocean, using satellite data. We show that ocean eddies locally affect near-surface wind, cloud properties and rainfall. The observed pattern of atmospheric change is consistent with a mechanism in which sea surface temperature anomalies associated with the oceanic eddies modify turbulence in the atmospheric boundary layer. In the case of cyclonic eddies, this modification triggers a slackening of near-surface winds, a decline in cloud fraction and water content, and a reduction in rainfall. We conclude that transient mesoscale ocean structures can significantly affect much larger atmospheric low-pressure systems that swiftly pass by at the latitudes investigated.

Description: An influence of solar irradiance variations on Earth’s surface climate has been repeatedly suggested, based on correlations between solar variability and meteorological variables1. Specifically, weaker westerly winds have been observed in winters with a less active sun, for example at the minimum phase of the 11-year sunspot cycle2, 3, 4. With some possible exceptions5, 6, it has proved difficult for climate models to consistently reproduce this signal7, 8. Spectral Irradiance Monitor satellite measurements indicate that variations in solar ultraviolet irradiance may be larger than previously thought9. Here we drive an ocean–atmosphere climate model with ultraviolet irradiance variations based on these observations. We find that the model responds to the solar minimum with patterns in surface pressure and temperature that resemble the negative phase of the North Atlantic or Arctic Oscillation, of similar magnitude to observations. In our model, the anomalies descend through the depth of the extratropical winter atmosphere. If the updated measurements of solar ultraviolet irradiance are correct, low solar activity, as observed during recent years, drives cold winters in northern Europe and the United States, and mild winters over southern Europe and Canada, with little direct change in globally averaged temperature. Given the quasiregularity of the 11-year solar cycle, our findings may help improve decadal climate predictions for highly populated extratropical regions

Description: The anaerobic oxidation of methane (AOM) with sulphate, an area currently generating great interest in microbiology, is accomplished by consortia of methanotrophic archaea (ANME) and sulphate-reducing bacteria1, 2. The enzyme activating methane in methanotrophic archaea has tentatively been identified as a homologue of methyl-coenzyme M reductase (MCR) that catalyses the methane-forming step in methanogenic archaea3, 4. Here we report an X-ray structure of the 280 kDa heterohexameric ANME-1 MCR complex. It was crystallized uniquely from a protein ensemble purified from consortia of microorganisms collected with a submersible from a Black Sea mat catalysing AOM with sulphate4. Crystals grown from the heterogeneous sample diffract to 2.1 Å resolution and consist of a single ANME-1 MCR population, demonstrating the strong selective power of crystallization. The structure revealed ANME-1 MCR in complex with coenzyme M and coenzyme B, indicating the same substrates for MCR from methanotrophic and methanogenic archaea. Differences between the highly similar structures of ANME-1 MCR and methanogenic MCR include a F430 modification, a cysteine-rich patch and an altered post-translational amino acid modification pattern, which may tune the enzymes for their functions in different biological contexts.

Description: According to small subunit ribosomal RNA (ss rRNA) sequence comparisons all known Archaea belong to the phyla Crenarchaeota, Euryarchaeota, and—indicated only by environmental DNA sequences—to the 'Korarchaeota'1, 2. Here we report the cultivation of a new nanosized hyperthermophilic archaeon from a submarine hot vent. This archaeon cannot be attached to one of these groups and therefore must represent an unknown phylum which we name 'Nanoarchaeota' and species, which we name 'Nanoarchaeum equitans'. Cells of 'N. equitans' are spherical, and only about 400 nm in diameter. They grow attached to the surface of a specific archaeal host, a new member of the genus Ignicoccus3. The distribution of the 'Nanoarchaeota' is so far unknown. Owing to their unusual ss rRNA sequence, members remained undetectable by commonly used ecological studies based on the polymerase chain reaction4. 'N. equitans' harbours the smallest archaeal genome; it is only 0.5 megabases in size. This organism will provide insight into the evolution of thermophily, of tiny genomes and of interspecies communication.

Description: Arctic sea ice area (SIA) during late summer and early fall decreased substantially over the last four decades, and its decline accelerated beginning in the early 2000s. Statistical analyses of observations show that enhanced poleward moisture transport from the North Pacific to the Arctic Ocean contributed to the accelerated SIA decrease during the most recent period. As a consequence, specific humidity in the Arctic Pacific sector significantly increased along with an increase of downward longwave radiation beginning in 2002, which led to a significant acceleration in the decline of SIA in the Arctic Pacific sector. The resulting sea ice loss led to increased evaporation in the Arctic Ocean, resulting in a further increase of the specific humidity in mid-to-late fall, thus acting as a positive feedback to the sea ice loss. The overall set of processes is also found in a long control simulation of a coupled climate model.

Description: Iron limits phytoplankton growth and hence the biological carbon pump in the Southern Ocean1. Models assessing the impacts of iron on the global carbon cycle generally rely on dust input and sediment resuspension as the predominant sources2, 3. Although it was previously thought that most iron from deep-ocean hydrothermal activity was inaccessible to phytoplankton because of the formation of particulates4, it has been suggested that iron from hydrothermal activity5, 6, 7 may be an important source of oceanic dissolved iron8, 9, 10, 11, 12, 13. Here we use a global ocean model to assess the impacts of an annual dissolved iron flux of approximately 9×108 mol, as estimated from regional observations of hydrothermal activity11, 12, on the dissolved iron inventory of the world’s oceans. We find the response to the input of hydrothermal dissolved iron is greatest in the Southern Hemisphere oceans. In particular, observations of the distribution of dissolved iron in the Southern Ocean3 (Chever et al., manuscript in preparation; Bowie et al., manuscript in preparation) can be replicated in our simulations only when our estimated iron flux from hydrothermal sources is included. As the hydrothermal flux of iron is relatively constant over millennial timescales14, we propose that hydrothermal activity can buffer the oceanic dissolved iron inventory against shorter-term fluctuations in dust deposition.

Description: In the present study, the influence of some major tropical modes of variability on northern hemisphere regional blocking frequency variability during boreal winter is investigated. Reanalysis data and an ensemble experiment with the ECMWF model using relaxation towards the ERA-Interim reanalysis data inside the tropics are used. The tropical modes under investigation are El Niño Southern Oscillation (ENSO), the Madden-Julian Oscillation (MJO) and the upper tropospheric equatorial zonal-mean zonal wind . An early (late) MJO phase refers to the part of the MJO cycle when enhanced (suppressed) precipitation occurs over the western Indian Ocean and suppressed (enhanced) precipitation occurs over the Maritime Continent and the western tropical Pacific. Over the North Pacific sector, it is found that enhanced (suppressed) high latitude blocking occurs in association with El Niño (La Niña) events, late (early) MJO phases and westerly (easterly) . Over central to southern Europe and the east Atlantic, it is found that late MJO phases, as well as a suppressed MJO are leading to enhanced blocking frequency. Furthermore, early (late) MJO phases are followed by blocking anomalies over the western North Atlantic region, similar to those associated with a positive (negative) North Atlantic Oscillation. Over northern Europe, the easterly (westerly) phase of is associated with enhanced (suppressed) blocking. These results are largely confirmed by both the reanalysis and the model experiment.

Description: Biological N2 fixation is an important part of the marine nitrogen cycle as it provides a source of new nitrogen that can support biological carbon export and sequestration. Research in the past decade has focused on determining the patterns of distribution and abundance of diazotrophs, defining the environmental features leading to these patterns and characterizing the factors that constrain marine N2 fixation overall. In this Review, we describe how variations in the deposition of iron from dust to different ocean basins affects the limiting nutrient for N2 fixation and the distribution of different diazotrophic species. However, many questions remain about marine N2 fixation, including the role of temperature, fixed nitrogen species, CO2 and physical forcing in controlling N2 fixation, as well as the potential for heterotrophic N2 fixation.

Description: The Eddy Kinetic Energy (EKE) associated with the Subtropical Countercurrent (STCC) in the western subtropical South Pacific is known to exhibit substantial seasonal and decadal variability. Using an eddy-permitting ocean general circulation model, which is able to reproduce the observed, salient features of the seasonal cycles of shear, stratification, baroclinic production and the associated EKE, we investigate the decadal changes of EKE. We show that the STCC region exhibits, uniquely among the subtropical gyres of the world’s oceans, significant, atmospherically forced, decadal EKE variability. The decadal variations are driven by changing vertical shear between the STCC in the upper 300 m and the South Equatorial Current below, predominantly caused by variations in STCC strength associated with a changing meridional density gradient. In the 1970s, an increased meridional density gradient results in EKE twice as large as in later decades in the model. Utilizing sensitivity experiments, decadal variations in the wind field are shown to be the essential driver. Local wind stress curl anomalies associated with the Interdecadal Pacific Oscillation (IPO) lead to up- and downwelling of the thermocline, inducing strengthening or weakening of the STCC and the associated EKE. Additionally, remote wind stress curl anomalies in the eastern subtropical South Pacific, which are not related to the IPO, generate density anomalies that propagate westward as Rossby waves and can account for up to 30–40 % of the density anomalies in the investigated region.

Description: New light is shed on Worthington's concept of the North Atlantic circulation, postulating the existence of two anticyclonic gyres. This concept, which seems to have been laid to rest in the last decade, has now been reinforced by the results of a simple linear Sverdrup circulation model yielding a band of westward transport all across the North Atlantic at about the Azores latitude. This narrow band is called the Azores Countercurrent (AzCC) and matches the position of westward flow required by Worthington's “northern gyre.” An anomaly in the meridional change of the wind-stress curl in the eastern North Atlantic has been identified as the driving mechanism. A comparison with observations shows that the AzCC is verified in many analyses of historical datasets and synoptic surveys. A lack of the AzCC in other analyses is probably due to missing meridional sections, strong smoothing, and the superimposed Ekman flow close to the sea surface directed to the southeast. The AzCC has not been verified in low-resolution general circulation models applying simplified wind-stress fields and large friction coefficients, but there is evidence for its existence in recent high-resolution models driven by realistic wind stresses. Based on these findings, a new pattern for the wind-driven upper ocean circulation of the midlatitude North Atlantic is presented.

Description: The Indian Ocean has sustained robust surface warming in recent decades, but the role of multi-decadal variability remains unclear. Using ocean model hindcasts, characteristics of low-frequency Indian Ocean temperature variations are explored. Simulated upper-ocean temperature changes across the Indian Ocean in the hindcast are consistent with those recorded in observational products and ocean reanalyses. Indian Ocean temperatures exhibit strong warming trends since the 1950s limited to the surface and south of 30°S, while extensive subsurface cooling occurs over much of the tropical Indian Ocean. Previous work focused on diagnosing causes of these long-term trends in the Indian Ocean over the second half of the 20th Century. Instead, the temporal evolution of Indian Ocean subsurface heat content is shown here to reveal distinct multi-decadal variations associated with the Pacific Decadal Oscillation and the long-term trends are thus interpreted to result from aliasing of the low-frequency variability. Transmission of the multi-decadal signal occurs via an oceanic pathway through the Indonesian Throughflow and is manifest across the Indian Ocean centered along 12°S as westward propagating Rossby waves modulating thermocline and subsurface heat content variations. Resulting low-frequency changes in the eastern Indian Ocean thermocline depth are associated with decadal variations in the frequency of Indian Ocean Dipole (IOD) events, with positive IOD events unusually common in the 1960s and 1990s with a relatively shallow thermocline. In contrast, the deeper thermocline depth in the 1970s and 1980s is associated with frequent negative IOD and rare positive IOD events. Changes in Pacific wind forcing in recent decades and associated rapid increases in Indian Ocean subsurface heat content can thus affect the basin’s leading mode of variability, with implications for regional climate and vulnerable societies in surrounding countries.

Description: Mesoscale ocean eddies are ubiquitous coherent rotating structures of water with radial scales on the order of 100 kilometers. Eddies play a key role in the transport and mixing of momentum and tracers across the World Ocean. We present a global daily mesoscale ocean eddy dataset that contains ~45 million mesoscale features and 3.3 million eddy trajectories that persist at least two days as identified in the AVISO dataset over a period of 1993–2014. This dataset, along with the open-source eddy identification software, extract eddies with any parameters (minimum size, lifetime, etc.), to study global eddy properties and dynamics, and to empirically estimate the impact eddies have on mass or heat transport. Furthermore, our open-source software may be used to identify mesoscale features in model simulations and compare them to observed features. Finally, this dataset can be used to study the interaction between mesoscale ocean eddies and other components of the Earth System.

Description: Although rising global sea levels will affect the shape of coastlines over the coming decades1, 2, the most severe and catastrophic shoreline changes occur as a consequence of local and regional-scale processes. Changes in sediment supply3 and deltaic subsidence4, 5, both natural or anthropogenic, and the occurrences of tropical cyclones4, 5 and tsunamis6 have been shown to be the leading controls on coastal erosion. Here, we use satellite images of South American mangrove-colonized mud banks collected over the past twenty years to reconstruct changes in the extent of the shoreline between the Amazon and Orinoco rivers. The observed timing of the redistribution of sediment and migration of the mud banks along the 1,500 km muddy coast suggests the dominant control of ocean forcing by the 18.6 year nodal tidal cycle7. Other factors affecting sea level such as global warming or El Niño and La Niña events show only secondary influences on the recorded changes. In the coming decade, the 18.6 year cycle will result in an increase of mean high water levels of 6 cm along the coast of French Guiana, which will lead to a 90 m shoreline retreat.

Description: THE rare deep-sea octopod Cirrothauma murrayi Chun 1910 was first described from a single specimen caught during the Michael Sars Expedition of 1910 (ref. 1). Until now it has been caught only four more times2. We describe here three specimens of this species that were recently caught during biological cruises of RRS Discovery (Fig. 1). All of these animals, including the Discovery ones, have been caught at depths of more than 1,500 m, except one that was dip-netted through the ice of the Arctic Ocean3.

Description: Naturally produced polybrominated diphenyl ethers (PBDEs) pervade the marine environment and structurally resemble toxic man-made brominated flame retardants. PBDEs bioaccumulate in marine animals and are likely transferred to the human food chain. However, the biogenic basis for PBDE production in one of their most prolific sources, marine sponges of the order Dysideidae, remains unidentified. Here, we report the discovery of PBDE biosynthetic gene clusters within sponge-microbiome-associated cyanobacterial endosymbionts through the use of an unbiased metagenome-mining approach. Using expression of PBDE biosynthetic genes in heterologous cyanobacterial hosts, we correlate the structural diversity of naturally produced PBDEs to modifications within PBDE biosynthetic gene clusters in multiple sponge holobionts. Our results establish the genetic and molecular foundation for the production of PBDEs in one of the most abundant natural sources of these molecules, further setting the stage for a metagenomic-based inventory of other PBDE sources in the marine environment.

Description: The Pacific sector of Antarctica, including both the Antarctic Peninsula and continental West Antarctica, has experienced substantial warming in the past 30 years. An increase in the circumpolar westerlies, owing in part to the decline in stratospheric ozone concentrations since the late 1970s, may account for warming trends in the peninsula region in austral summer and autumn. The more widespread warming in continental West Antarctica (Ellsworth Land and Marie Byrd Land) occurs primarily in austral winter and spring, and remains unexplained. Here we use observations of Antarctic surface temperature and global sea surface temperature, and atmospheric circulation data to show that recent warming in continental West Antarctica is linked to sea surface temperature changes in the tropical Pacific. Over the past 30 years, anomalous sea surface temperatures in the central tropical Pacific have generated an atmospheric Rossby wave response that influences atmospheric circulation over the Amundsen Sea, causing increased advection of warm air to the Antarctic continent. General circulation model experiments show that the central tropical Pacific is a critical region for producing the observed high latitude response. We conclude that, by affecting the atmospheric circulation at high southern latitudes, increasing tropical sea surface temperatures may account for West Antarctic warming through most of the twentieth century.

Description: Zircon is a common mineral in continental crustal rocks. As it is not easily altered in processes such as erosion or transport, this mineral is often used in the reconstruction of geological processes such as the formation and evolution of the continents. Zircon can also survive under conditions of the Earth’s mantle, and rare cases of zircons crystallizing in the mantle significantly before their entrainment into magma and eruption to the surface have been reported1,2,3. Here we analyse the isotopic and trace element compositions of large zircons of gem quality from the Eger rift, Bohemian massif, and find that they are derived from the mantle. (U–Th)/He analyses suggest that the zircons as well as their host basalts erupted between 29 and 24 million years ago, but fragments from the same xenocrysts reveal U–Pb ages between 51 and 83 million years. We note a lack of older volcanism and of fragments from the lower crust, which suggests that crustal residence time before eruption is negligible and that most rock fragments found in similar basalts from adjacent volcanic fields equilibrated under mantle conditions. We conclude that a specific chemical environment in this part of the Earth’s upper mantle allowed the zircons to remain intact for about 20–60 million years.

Description: The North Atlantic Oscillation (NAO) and the Arctic Oscillation (AO) describe the dominant part of the variability in the Northern Hemisphere extratropical troposphere. Due to the strong connection of these patterns with surface climate, recent years have shown an increased interest and an increasing skill in forecasting them. However, it is unclear what the intrinsic limits of short-term predictability for the NAO and AO patterns are. This study compares the variability and predictability of both patterns, using a range of data and index computation methods for the daily NAO/AO indices. Small deviations from Gaussianity are found and characteristic decorrelation time scales of around one week. In the analysis of the Lyapunov spectrum it is found that predictability is not significantly different between the AO and NAO or between reanalysis products. Differences exist however between the indices based on EOF analysis, which exhibit predictability time scales around 12 - 16 days, and the station-based indices, exhibiting a longer predictability of 18 - 20 days. Both of these time scales indicate predictability beyond that currently obtained in ensemble prediction models for short-term predictability. Additional longer-term predictability for these patterns may be gained through local feedbacks and remote forcing mechanisms for particular atmospheric conditions.

Description: The synthetic production of monodisperse single magnetic domain nanoparticles at ambient temperature is challenging. In nature, magnetosomes--membrane-bound magnetic nanocrystals with unprecedented magnetic properties--can be biomineralized by magnetotactic bacteria. However, these microbes are difficult to handle. Expression of the underlying biosynthetic pathway from these fastidious microorganisms within other organisms could therefore greatly expand their nanotechnological and biomedical applications. So far, this has been hindered by the structural and genetic complexity of the magnetosome organelle and insufficient knowledge of the biosynthetic functions involved. Here, we show that the ability to biomineralize highly ordered magnetic nanostructures can be transferred to a foreign recipient. Expression of a minimal set of genes from the magnetotactic bacterium Magnetospirillum gryphiswaldense resulted in magnetosome biosynthesis within the photosynthetic model organism Rhodospirillum rubrum. Our findings will enable the sustainable production of tailored magnetic nanostructures in biotechnologically relevant hosts and represent a step towards the endogenous magnetization of various organisms by synthetic biology.

Description: The 13th European Polar Low Workshop was organized by the European Polar Low Working Group (www.uni-trier.de/index.php?id=20308)and gathered scientists from nine countries focusing on polar mesocyclones in both hemispheres and other mesoscale weather phenomena such as katabatic winds, tip jets, boundary layer fronts, cold air outbreaks, and weather extremes in polar regions. Topics included experimental, climatological, theoretical, modeling, and remote sensing studies. The aim was to bring together scientists and forecasters to present their latest work and recent findings on these topics and to encourage discussions on improving forecasting and understanding of these phenomena.

Description: The regional climate model COSMOin Climate Limited-AreaMode (COSMO-CLM or CCLM) is used with a high resolution of 15km for the entire Arctic for all winters 2002/03–2014/15. The simulations show a high spatial and temporal variability of the recent 2-m air temperature increase in the Arctic. The maximum warming occurs north of Novaya Zemlya in the Kara Sea and Barents Sea between March 2003 and 2012 and is responsible for up to a 208C increase. Land-based observations confirm the increase but do not cover the maximum regions that are located over the ocean and sea ice.Also, the 30-km version of theArctic SystemReanalysis (ASR) is used to verify the CCLM for the overlapping time period 2002/03–2011/12. The differences between CCLM and ASR 2-m air temperatures vary slightly within 18C for the ocean and sea ice area. Thus,ASR captures the extreme warming as well. The monthly 2-m air temperatures of observations and ERA-Interim data show a large variability for the winters 1979–2016. Nevertheless, the air temperature rise since the beginning of the twenty-first century is up to 8 times higher than in the decades before. The sea ice decrease is identified as the likely reason for the warming. The vertical temperature profiles show that the warming has a maximum near the surface, but a 0.58Cyr21 increase is found up to 2 km. CCLM, ASR, and also the coarser resolved ERA-Interim data show that February and March are the months with the highest 2-m air temperature increases, averaged over the ocean and sea ice area north of 708N; for CCLM the warming amounts to an average of almost 58C for 2002/03–2011/12.

Description: THE Sierra Leone Rise, located in the east equatorial Atlantic, forms a discontinuous chain of seamounts as shallow as 2 km extending with a general NE–SW trend from near the Sierra Leone coast of Africa, to the St Paul fracture zone near the Mid-Atlantic Ridge (Fig. 1). The origin of this feature has remained a topic of discussion. Sheridan et al.1 have hypothesised that the Sierra Leone Rise is a volcanic structure formed at the beginning of the opening of the Atlantic in the early Cretaceous period. The twin features of the Sierra Leone and the Ceara Rises are probably of oceanic origin and were created 80 Myr ago or later in their present-day position with respect to Africa and South America2. The Atlantic ocean exhibits several similar aseismic structures which appear symmetrically oriented with respect to the mid-oceanic ridge, such as the Walvis–Rio Grande Rise and the Iceland Faeroes–Iceland Greenland Ridges. These structures are volcanic edifices having a composition similar to that found in their associated islands3–7. Deep sea drilling of the Ceara Rise8,9 penetrated a basaltic basement of the upper Cretaceous period (Maestrichtian) (Leg 39, Site 354). Similarly, a DSDP hole (Leg 41, Site 366) on the Sierra Leone Rise, penetrated sediments of the same period, without reaching basement10. We report here the discovery of alkali-rich volcanics in an area of the Sierra Leone Rise. The sediment overlying the rock fragments is aged ∼45 Myr.

Description: Marine phytoplankton blooms are annual spring events that sustain active and diverse bloom-associated bacterial populations. Blooms vary considerably in terms of eukaryotic species composition and environmental conditions, but a limited number of heterotrophic bacterial lineages — primarily members of the Flavobacteriia, Alphaproteobacteria and Gammaproteobacteria — dominate these communities. In this Review, we discuss the central role that these bacteria have in transforming phytoplankton-derived organic matter and thus in biogeochemical nutrient cycling. On the basis of selected field and laboratory-based studies of flavobacteria and roseobacters, distinct metabolic strategies are emerging for these archetypal phytoplankton-associated taxa, which provide insights into the underlying mechanisms that dictate their behaviours during blooms.

Description: RECENT advances in 40Ar/39Ar dating1,2 have made it possible to date individual K-feldspar grains from Pleistocene tephra, a capability that greatly improves the reliability and temporal resolving power of the method. Here we apply these new techniques to the dating of a phonolite tephra from the East Eifel volcanic field in West Germany, which is sandwiched between loess and palaeosol (alfisol) deposits, and which was therefore erupted during the transition from a glacial to an interglacial period. Our age estimate for this transition is 215±4 kyr (1 σ), which has important implications for the marine δ18O timescale and for models of global climate change during the Pleistocene. The results show that single-grain dating can detect and compensate for the large quantities of xenocrystic contaminants which are found in many tephra deposits. This technique could be used to date the tephra layers found in marine sediment cores and the results could greatly enhance the reliability of the marine δ18O timescale for more rigorous Fourier analysis testing of the Milankovitch hypothesis.

Description: A sigma-coordinate, primitive equation ocean circulation model is used to explore the problem of the remnant generation of trapped waves about a tall, circular, isolated seamount by an incident oscillatory barotropic current. The numerical solutions are used to extend prior studies into the fully nonlinear regime, and in particular to quantify and interpret the occurrence of residual circulation. Specific attention is also devoted to the dependence of the resonance and rectification mechanisms on stratification, forcing frequency, and choice of subgrid-scale viscous closure. Resonantly generated trapped waves of significant amplitude are found to occur broadly in parameter space; a precise match between the frequency of the imposed incident current and the frequency of the trapped free wave is not necessary to produce substantial excitation of the trapped wave. The maximum amplification factors produced in these numerical solutions, O(100) times the strength of the incident current, are consistent with previous studies. In the presence of nonlinear advection, strong residual currents are produced. The time-mean circulation about the seamount is dominated by a strong bottom-intensified, anticyclonic circulation closely trapped to the seamount. Maximum local time-mean current amplitudes are found to be as large as 37% of the magnitude of the propagating waves. In addition to the strong anticyclonic residual flow, there is a weaker secondary circulation in the vertical-radial plane characterized by downwelling over the top of the seamount at all depths. Maximum vertical downwelling rates of several tens of meters per day occur at the summit of the seamount. The vertical mass flux implied by this systematic downwelling is balanced by a slow radial flux of mass directed outward along the flanks of the seamount. Time-mean budgets for the radial and azimuthal components of momentum show that horizontal eddy fluxes of momentum are responsible for transporting net radial and azimuthal momentum from the far field to the upper flanks of the seamount. There, Coriolis and pressure gradient forces provide the dominant balances in the radial direction. However, the Coriolis force and viscous effects provide the primary balance for the azimuthal component.

Description: North Atlantic air-sea heat and freshwater flux data from several sources are used to estimate the conversion rate of water from one density to another throughout the range of sea surface density. This cross-isopycnal mass flux varies greatly over the ocean, with a maximum of 32.2 × 106 m3 s−1 at σ = 26.1 kg m−3 (toward greater densities) and a minimum of −7.6 × 106 m3 s−1 (toward lesser densities) at σ = 23.0 kg m−3. The air-sea fluxes force water to accumulate in three density bands: one at the lowest sea surface densities generated by heating; one centered near the density of subtropical mode water; and one spanning subpolar mode water densities. The transfer of water to the highest and lowest densities is balanced by mixing, which returns water to the middle density range, and also by boundary sources or sinks. Integrating the cross-isopycnal flux over all densities gives an annual average sinking of about 9 × 1O6 m3 s−1, which presumably escapes across the equator and must be balanced by a similar inflow. Comparison with estimates from tracer studies suggests that the renewal of tracer characteristics at a given density may occur without the existence of an annual average mass source at that density, because along- and cross-isopycnal mixing can renew a tracer without supplying mass.

Description: The formation of secondary ice in clouds, i.e. ice particles that are created at temperatures above the limit for homogeneous freezing without the direct involvement of a heterogeneous ice nucleus is one of the longest standing puzzles in cloud physics. Here we present comprehensive laboratory investigations on the formation of small ice particles upon the freezing of drizzle-sized cloud droplets levitated in an electrodynamic balance. Four different categories of secondary ice formation (bubble bursting, jetting, cracking, breakup) could be detected and their respective frequencies of occurrence as a function of temperature and droplet size are given. We find that bubble bursting occurs more often than droplet splitting. While we do not observe the shattering of droplets into many large fragments, we find that the average number of small secondary ice particles released during freezing is strongly droplet-size dependent and may well exceed unity for droplets larger than 300 μm in diameter. This leaves droplet fragmentation an important secondary ice process effective at temperatures around -10 °C in clouds where large drizzle droplets are present.

Description: Well-known problems trouble coupled general circulation models of the eastern Atlantic and Pacific Ocean basins. Model climates are significantly more symmetric about the equator than is observed. Model sea surface temperatures are biased warm south and southeast of the equator, and the atmosphere is too rainy within a band south of the equator. Near-coastal eastern equatorial SSTs are too warm, producing a zonal SST gradient in the Atlantic opposite in sign to that observed. The U.S. Climate Variability and Predictability Program (CLIVAR) Eastern Tropical Ocean Synthesis Working Group (WG) has pursued an updated assessment of coupled model SST biases, focusing on the surface energy balance components, on regional error sources from clouds, deep convection, winds, and ocean eddies; on the sensitivity to model resolution; and on remote impacts. Motivated by the assessment, the WG makes the following recommendations: 1) encourage identification of the specific parameterizations contributing to the biases in individual models, as these can be model dependent; 2) restrict multimodel intercomparisons to specific processes; 3) encourage development of high-resolution coupled models with a concurrent emphasis on parameterization development of finer-scale ocean and atmosphere features, including low clouds; 4) encourage further availability of all surface flux components from buoys, for longer continuous time periods, in persistently cloudy regions; and 5) focus on the eastern basin coastal oceanic upwelling regions, where further opportunities for observational–modeling synergism exist.

Description: Vertebrates have evolved a sophisticated adaptive immune system that relies on an almost infinite diversity of antigen receptors that are clonally expressed by specialized immune cells that roam the circulatory system. These immune cells provide vertebrates with extraordinary antigen-specific immune capacity and memory, while minimizing self-reactivity. Plants, however, lack specialized mobile immune cells. Instead, every plant cell is thought to be capable of launching an effective immune response. So how do plants achieve specific, self-tolerant immunity and establish immune memory? Recent developments point towards a multilayered plant innate immune system comprised of self-surveillance, systemic signalling and chromosomal changes that together establish effective immunity.

Description: To survey hepatitis B virus (HBV) integration in liver cancer genomes, we conducted massively parallel sequencing of 81 HBV-positive and 7 HBV-negative hepatocellular carcinomas (HCCs) and adjacent normal tissues. We found that HBV integration is observed more frequently in the tumors (86.4%) than in adjacent liver tissues (30.7%). Copy-number variations (CNVs) were significantly increased at HBV breakpoint locations where chromosomal instability was likely induced. Approximately 40% of HBV breakpoints within the HBV genome were located within a 1,800-bp region where the viral enhancer, X gene and core gene are located. We also identified recurrent HBV integration events (in ≥4 HCCs) that were validated by RNA sequencing (RNA-seq) and Sanger sequencing at the known and putative cancer-related TERT, MLL4 and CCNE1 genes, which showed upregulated gene expression in tumor versus normal tissue. We also report evidence that suggests that the number of HBV integrations is associated with patient survival.

Description: WHILE ammonites and all other ectocochleate cephalopods became extinct, nautiloids survived relatively unchanged from the Ordovician, suggesting that they are unusually well adapted to their niche. Here we obtain high-resolution tracks of Nautilus positions and depths, combined with telemetered jet pressures, which clarify both its lifestyle and economics. Nautilus is more active in nature than in captivity1, but its energy costs are lower than projected2,3. Viewing Nautilus as 'vertic', rather than benthic, resolves this contradiction. Records show that the cost of transport is the same in any direction within a vertical plane. Living on a reef face swept by a lateral current means that vertical movements4,5 sample large areas for chemical trails. A detected trail can be followed upcurrent in the slow-moving boundary layer, but no effort is wasted on horizontal movement without good prospects for food; long-range movements are downcurrent and made by drifting. Once fed, a Nautilus can reduce its energy costs by moving to deeper, cooler waters, where a single meal can last for months.

Description: Climate warming at the end of the last glaciation caused ice caps on Icelandic volcanoes to retreat. Removal of surface ice load is thought to have decreased pressures in the underlying mantle, triggering decompression melting, enhanced magma generation and increased volcanic activity1–3. Present-day climate change could have the same effect, although there may be a time lag of hundreds of years between magma generation and eruption4,5. However, in addition to increased magma generation, pressure changes associated with ice retreat should also alter the capacity for storing magma within the crust. Here we use a numerical model to evaluate the effect of the current decrease in ice load on magma storage in the crust at the Kverkfjöll volcanic system, located partially beneath Iceland’s largest ice cap. We compare the model results with radar and global positioning system measurements of surface displacement and changes in crustal stress between 2007 and 2008, during the intrusion of a deep dyke at Upptyppingar. We find that although the main component of stress recorded during dyke intrusion relates to plate extension, another component of stress is consistent with the stress field caused by the retreating ice cap. We conclude that the retreating ice cap led to enhanced capture of magma within the crust. We suggest that ice-cap retreat can promote magma storage, rather than eruption, at least in the short term.

Description: The ratio of global mean surface air temperature change to cumulative CO2 emissions, referred to as transient climate response to cumulative CO2 emissions (TCRE), has been shown to be approximately constant on centennial time scales. The mechanisms behind this constancy are not well understood, but previous studies suggest that compensating effects of ocean heat and carbon fluxes, which are governed by the same ocean mixing processes, could be one cause for this approximate constancy. This hypothesis is investigated by forcing different versions of the University of Victoria Earth System Climate Model, which differ in the ocean mixing parameterization, with an idealized scenario of 1% annually increasing atmospheric CO2 until quadrupling of the preindustrial CO2 concentration and constant concentration thereafter. The relationship between surface air warming and cumulative emissions remains close to linear, but the TCRE varies between model versions, spanning the range of 1.2°–2.1°C EgC−1 at the time of CO2 doubling. For all model versions, the TCRE is not constant over time while atmospheric CO2 concentrations increase. It is constant after atmospheric CO2 stabilizes at 1120 ppm, because of compensating changes in temperature sensitivity (temperature change per unit radiative forcing) and cumulative airborne fraction. The TCRE remains approximately constant over time even if temperature sensitivity, determined by ocean heat flux, and cumulative airborne fraction, determined by ocean carbon flux, are taken from different model versions with different ocean mixing settings. This can partially be explained with temperature sensitivity and cumulative airborne fraction following similar trajectories, which suggests ocean heat and carbon fluxes scale approximately linearly with changes in vertical mixing.

Description: The Weddell Sea polynya is a large opening in the open-ocean sea ice cover associated with intense deep convection in the ocean. A necessary condition to form and maintain a polynya is the presence of a strong subsurface heat reservoir. This study investigates the processes that control the stratification and hence the buildup of the subsurface heat reservoir in the Weddell Sea. To do so, a climate model run for 200 years under preindustrial forcing with two eddying resolutions in the ocean (0.25° CM2.5 and 0.10° CM2.6) is investigated. Over the course of the simulation, CM2.6 develops two polynyas in the Weddell Sea, while CM2.5 exhibits quasi-continuous deep convection but no polynyas, exemplifying that deep convection is not a sufficient condition for a polynya to occur. CM2.5 features a weaker subsurface heat reservoir than CM2.6 owing to weak stratification associated with episodes of gravitational instability and enhanced vertical mixing of heat, resulting in an erosion of the reservoir. In contrast, in CM2.6, the water column is more stably stratified, allowing the subsurface heat reservoir to build up. The enhanced stratification in CM2.6 arises from its refined horizontal grid spacing and resolution of topography, which allows, in particular, a better representation of the restratifying effect by transient mesoscale eddies and of the overflows of dense waters along the continental slope.

Description: The elemental stoichiometry of sea water and particulate organic matter is remarkably similar. This observation led Redfield to hypothesize that the oceanic ratio of nitrate to phosphate is controlled by the remineralization of phytoplankton biomass1. The Redfield ratio is used universally to quantitatively link the marine nitrogen and phosphorus cycles in numerous biogeochemical applications2,3,4. Yet, empirical and theoretical studies show that the ratio of nitrogen to phosphorus in phytoplankton varies greatly with taxa5,6 and growth conditions7,8,9. Here we present a dynamic five-box ecosystem model showing that non-Redfield utilization of dissolved nitrogen and phosphorus by non-nitrogen-fixing phytoplankton controls the magnitude and distribution of nitrogen fixation. In our simulations, systems dominated by rapidly growing phytoplankton with low nitrogen to phosphorus uptake ratios reduce the phosphorus available for nitrogen fixation. In contrast, in systems dominated by slow-growing phytoplankton with high nitrogen to phosphorus uptake ratios nitrogen deficits are enhanced, and nitrogen fixation is promoted. We show that estimates of nitrogen fixation are up to fourfold too high when non-Redfield uptake stoichiometries are ignored. We suggest that the relative abundance of fast- and slow-growing phytoplankton controls the amount of new nitrogen added to the ocean.

Description: Microorganisms produce a wealth of structurally diverse specialized metabolites with a remarkable range of biological activities and a wide variety of applications in medicine and agriculture, such as the treatment of infectious diseases and cancer, and the prevention of crop damage. Genomics has revealed that many microorganisms have far greater potential to produce specialized metabolites than was thought from classic bioactivity screens; however, realizing this potential has been hampered by the fact that many specialized metabolite biosynthetic gene clusters (BGCs) are not expressed in laboratory cultures. In this Review, we discuss the strategies that have been developed in bacteria and fungi to identify and induce the expression of such silent BGCs, and we briefly summarize methods for the isolation and structural characterization of their metabolic products.

Description: The onset of the Palaeocene/Eocene thermal maximum (about 55 Myr ago) was marked by global surface temperatures warming by 5–7 °C over approximately 30,000 yr (ref. 1), probably because of enhanced mantle outgassing2, 3 and the pulsed release of approx1,500 gigatonnes of methane carbon from decomposing gas-hydrate reservoirs4, 5, 6, 7. The aftermath of this rapid, intense and global warming event may be the best example in the geological record of the response of the Earth to high atmospheric carbon dioxide concentrations and high temperatures. This response has been suggested to include an intensified flux of organic carbon from the ocean surface to the deep ocean and its subsequent burial through biogeochemical feedback mechanisms8. Here we present firm evidence for this view from two ocean drilling cores, which record the largest accumulation rates of biogenic barium—indicative of export palaeoproductivity—at times of maximum global temperatures and peak excursion values of delta13C. The unusually rapid return of delta13C to values similar to those before the methane release7 and the apparent coupling of the accumulation rates of biogenic barium to temperature, suggests that the enhanced deposition of organic matter to the deep sea may have efficiently cooled this greenhouse climate by the rapid removal of excess carbon dioxide from the atmosphere.

Description: Seasonal variability in pathways of warm water masses toward the Kangerdlugssuaq Fjord-Glacier system (KF/KG), southeast Greenland, is investigated by backtracking Lagrangian particles seeded at the fjord mouth in a high-resolution regional ocean model simulation in the ice-free and the ice-covered seasons. The waters at KF are a mixture of Atlantic-origin water advected from the Irminger Basin (FF for Faxaflói), the deep waters from the Denmark Strait and the waters from the Arctic Ocean, both represented by the Kögur section (KO). Below 200m depth, the warm water is a mixture of FF and KO water masses, and is warmer in winter than in summer. We find that seasonal differences in pathways double the fraction of FF particles in winter, causing the seasonal warming and salinification. Seasonal temperature variations at the upstream sections (FF and KO) have a negligible impact on temperature variations near the fjord. Successful monitoring of heat flux to the fjord therefore needs to take place close to the fjord, and cannot be inferred from upstream conditions.

Description: Cultivable Actinobacteria are the largest source of microbially derived bioactive molecules. The high demand for novel antibiotics highlights the need for exploring novel sources of these bacteria. Microbial symbioses with sessile macro-organisms, known to contain bioactive compounds likely of bacterial origin, represent an interesting and underexplored source of Actinobacteria. We studied the diversity and potential for bioactive-metabolite production of Actinobacteria associated with two marine lichens ( Lichina confinis and L. pygmaea ; from intertidal and subtidal zones) and one littoral lichen ( Roccella fuciformis ; from supratidal zone) from the Brittany coast (France), as well as the terrestrial lichen Collema auriforme (from a riparian zone, Austria). A total of 247 bacterial strains were isolated using two selective media. Isolates were identified and clustered into 101 OTUs (98% identity) including 51 actinobacterial OTUs. The actinobacterial families observed were: Brevibacteriaceae, Cellulomonadaceae, Gordoniaceae, Micrococcaceae, Mycobacteriaceae, Nocardioidaceae, Promicromonosporaceae, Pseudonocardiaceae, Sanguibacteraceae and Streptomycetaceae. Interestingly, the diversity was most influenced by the selective media rather than lichen species or the level of lichen thallus association. The potential for bioactive-metabolite biosynthesis of the isolates was confirmed by screening genes coding for polyketide synthases types I and II. These results show that littoral lichens are a source of diverse potentially bioactive Actinobacteria.

Description: Scattered groups of these ancient fish may all stem from a single remote population. Coelacanths were discovered in the Comoros archipelago to the northwest of Madagascar in 1952. Since then, these rare, ancient fish have been found to the south off Mozambique, Madagascar and South Africa, and to the north off Kenya and Tanzania — but it was unclear whether these are separate populations or even subspecies. Here we show that the genetic variation between individuals from these different locations is unexpectedly low. Combined with earlier results from submersible and oceanographic observations1, 2, our findings indicate that a separate African metapopulation is unlikely to have existed and that locations distant from the Comoros were probably inhabited relatively recently by either dead-end drifters or founders that originated in the Comoros.

Description: Living coelacanths (Latimeria chalumnae) are normally found only in the western Indian Ocean, where they inhabit submarine caves in the Comores Islands. Two specimens have since been caught off the island of Manado Tua, north Sulawesi, Indonesia, some 10,000 kilometres away. We sought to determine the ecological and geographic distribution of Indonesian coelacanth populations with a view to drawing up conservation measures for this extremely rare fish. During our explorations, we discovered two living Indonesian coelacanths 360 km southwest of Manado Tua.

Description: The exponentially increasing number of sequenced genomes necessitates fast, accurate, universally applicable and automated approaches for the delineation of prokaryotic species. We developed specI (species identification tool; http://www.bork.embl.de/software/specI/), a method to group organisms into species clusters based on 40 universal, single-copy phylogenetic marker genes. Applied to 3,496 prokaryotic genomes, specI identified 1,753 species clusters. Of 314 discrepancies with a widely used taxonomic classification, 〉62% were resolved by literature support.

Description: There have been decades, such as 2000–2009, when the observed globally averaged surface-temperature time series shows little increase or even a slightly negative trend1 (a hiatus period). However, the observed energy imbalance at the top-of-atmosphere for this recent decade indicates that a net energy flux into the climate system of about 1 W m−2 (refs 2, 3) should be producing warming somewhere in the system4,5. Here we analyse twenty-first-century climate-model simulations that maintain a consistent radiative imbalance at the top-of-atmosphere of about 1 W m−2 as observed for the past decade. Eight decades with a slightly negative global mean surface-temperature trend show that the ocean above 300 m takes up significantly less heat whereas the ocean below 300 m takes up significantly more, compared with non-hiatus decades. The model provides a plausible depiction of processes in the climate system causing the hiatus periods, and indicates that a hiatus period is a relatively common climate phenomenon and may be linked to La Niña-like conditions.

Description: In Ammassalik, in southeast Greenland, downslope winds can reach hurricane intensity and represent a hazard for the local population and environment. They advect cold air down the ice sheet and over the Irminger Sea, where they drive large ocean–atmosphere heat fluxes over an important ocean convection region. Earlier studies have found them to be associated with a strong katabatic acceleration over the steep coastal slopes, flow convergence inside the valley of Ammassalik, and—in one instance—mountain wave breaking. Yet, for the general occurrence of strong downslope wind events, the importance of mesoscale processes is largely unknown. Here, two wind events—one weak and one strong—are simulated with the atmospheric Weather Research and Forecasting (WRF) Model with different model and topography resolutions, ranging from 1.67 to 60 km. For both events, but especially for the strong one, it is found that lower resolutions underestimate the wind speed because they misrepresent the steepness of the topography and do not account for the underlying wave dynamics. If a 5-km model instead of a 60-km model resolution in Ammassalik is used, the flow associated with the strong wind event is faster by up to 20 m s−1. The effects extend far downstream over the Irminger Sea, resulting in a diverging spatial distribution and temporal evolution of the heat fluxes. Local differences in the heat fluxes amount to 20%, with potential implications for ocean convection.

Description: Predicting tropical cyclone (TC) activity becomes more important every year while the understanding of what factors impact them continues to be complicated. El Niño–Southern Oscillation (ENSO) is one of the primary factors impacting the activities in both the Pacific and the Atlantic, but an extensive examination of the fluctuation in this system has yet to be studied in its entirety. This article analyzes the ENSO impacts on the Atlantic tropical cyclone activity during the assessed warm and cold years to show the dominant centennial-scale variation impact. This study looks to plausibly link this variation to the Southern Ocean centennial variability, which is rarely mentioned in any factors affecting the Atlantic tropical cyclone activity. This centennial variability could be used to enhance future work related to predicting tropical cyclones.

Description: Antarctic Bottom Water flows into the western North Atlantic across the equator, shifting from the western side to the eastern side of the trough between the American continents and the Mid-Atlantic Ridge as it continues north. This is puzzling because such large-scale motion is thought to be controlled by dynamics that disallows an eastern boundary current. Previous explanations for the transposition involve a (necessarily small-scale) density current that changes sides because of the change in sign of rotation across the equator, or a topographic effect that changes the sign of the effective mean vorticity gradient and thus requires an eastern boundary current. Here an alternative explanation for the overall structure of bottom flow is given. A source of mass to a thin bottom layer is assumed to upwell uniformly across its interface into a less dense layer at rest. A simple formula for the magnitude of the upwelling and thickness of the layer is derived that depends on the source strength to the bottom layer. For a strong enough source, the bottom layer thickness is zero along a grounding curve that separates the bottom water from the western boundary and confines it to the east. A band of recirculating interior flow occurs, supplied by an isolated northern and western boundary current. Similar structures appear to exist in the Antarctic Bottom Water of the western North Atlantic.

Description: Results of a three-dimensional primitive equation model are presented simulating turbulent mesoscale motions in the seasonal thermocline on an f plane. The model is based on a hybrid vertical coordinate scheme and conserves isopycnic potential vorticity. Mesoscale turbulence is modeled in terms of an unstable potential vorticity front. The model integration starts from a purely zonal, 60-km-wide geostrophically balanced jet, on which is superimposed a small initial perturbation. The most unstable mode exhibits a wavelength of 85 km and is driven by a mixed type of instability. Characteristic dynamical ingredients of the wave are enhanced cyclonic and anticyclonic relative vorticity in the troughs and the ridges, respectively, due to the curvature of the flow. Vertical motion of up to 10 m d−1 occurring downstream of the ridges (downwelling) and downstream of the troughs (upwelling) is driven by geostrophic advection of relative vorticity. The contrast of static stability across the front is changing during amplification of the instability: in troughs the stability is decreasing whereas in ridges it is increasing. The density field exhibits local anomalies of the isopycnals' depths (bumps) due to the ageostrophic cross-jet advection of potential vorticity streamers wound up in cyclones and anticyclones. Locally, the potential vorticity gradients are enhanced, creating a multiple front structure. The model results support observations and findings of earlier atmospheric and oceanic models. It is emphasized that mesoscale turbulent structures may have a profound influence on primary productivity, mixed-layer, and internal wave dynamics.

Description: Downward wave coupling (DWC) is an important process that characterizes the dynamical coupling between the stratosphere and troposphere via planetary wave reflection. A recent modeling study indicated that natural forcing factors, including sea-surface temperature variability and quasi-biennial oscillation, influence DWC and the associated surface impact in the Northern Hemisphere (NH). In light of this, we further investigate how DWC in the NH is affected by anthropogenic forcings, using a fully coupled chemistry-climate model CESM1 (WACCM). The results indicate that the occurrence of DWC is significantly suppressed in the future, starting later in the seasonal cycle, with more events concentrated in late winter (February-March). The future decrease in DWC events is associated with enhanced wave absorption in the stratosphere due to increased greenhouse gases. The enhanced wave absorption is manifest as more absorbing types of stratospheric sudden warmings, with more events concentrated in early winter. This early winter condition leads to a delay in the development of the upper stratospheric reflecting surface, resulting in a shift in the seasonal cycle of DWC towards late winter. The tropospheric responses to DWC events in the future exhibit different spatial patterns compared to those of the past. In the North Atlantic sector, DWC-induced circulation changes are characterized by a poleward shift and an eastward extension of the tropospheric jet, while in the North Pacific sector, the circulation changes are characterized by a weakening of the tropospheric jet. These responses are consistent with a change in the pattern of DWC-induced synoptic-scale eddy-mean flow interaction.

Description: Decadal variabilities in Indian Ocean subsurface ocean heat content (OHC; 50–300 m) since the 1950s are examined using ocean reanalyses. This study elaborates on how Pacific variability modulates the Indian Ocean on decadal time scales through both oceanic and atmospheric pathways. High correlations between OHC and thermocline depth variations across the entire Indian Ocean Basin suggest that OHC variability is primarily driven by thermocline fluctuations. The spatial pattern of the leading mode of decadal Indian Ocean OHC variability closely matches the regression pattern of OHC on the interdecadal Pacific oscillation (IPO), emphasizing the role of the Pacific Ocean in determining Indian Ocean OHC decadal variability. Further analyses identify different mechanisms by which the Pacific influences the eastern and western Indian Ocean. IPO-related anomalies from the Pacific propagate mainly through oceanic pathways in the Maritime Continent to impact the eastern Indian Ocean. By contrast, in the western Indian Ocean, the IPO induces wind-driven Ekman pumping in the central Indian Ocean via the atmospheric bridge, which in turn modifies conditions in the southwestern Indian Ocean via westward-propagating Rossby waves. To confirm this, a linear Rossby wave model is forced with wind stresses and eastern boundary conditions based on reanalyses. This linear model skillfully reproduces observed sea surface height anomalies and highlights both the oceanic connection in the eastern Indian Ocean and the role of wind-driven Ekman pumping in the west. These findings are also reproduced by OGCM hindcast experiments forced by interannual atmospheric boundary conditions applied only over the Pacific and Indian Oceans, respectively.

Description: The decadal-scale variability in the tropical Pacific has been analyzed herein by means of observations and numerical model simulations. The two leading modes of the sea surface temperature (SST) variability in the central western Pacific are a decadal mode with a period of about 10 yr and the ENSO mode with a dominant period of about 4 yr. The SST anomaly pattern of the decadal mode is ENSO like. The decadal mode, however, explains most variance in the western equatorial Pacific and off the equator. A simulation with an ocean general circulation model (OGCM) forced by reanalysis data is used to explore the origin of the decadal mode. It is found that the variability of the shallow subtropical–tropical overturning cells is an important factor in driving the decadal mode. This is supported by results from a multicentury integration with a coupled ocean–atmosphere general circulation model (CGCM) that realistically simulates tropical Pacific decadal variability. Finally, the sensitivity of the shallow subtropical–tropical overturning cells to greenhouse warming is discussed by analyzing the results of a scenario integration with the same CGCM.

Description: As the complex interplay of forces in the ocean responds to climate change, the dynamics of global ocean circulation are shifting.

Description: Oceanic ecosystems altered by interdecadal climate variability may provide a feedback to the physical climate by phytoplankton affecting heat fluxes into the upper ocean and dimethylsulfide fluxes into the atmosphere

Description: The circulation of the northeastern Atlantic Ocean at intermediate depths is characterized by watermass transformation processes that involve Iceland–Scotland Overflow Water (ISOW) from the northeast, Labrador Sea Water (LSW) from the west, and Mediterranean Water from the south. Field observations were carried out with 89 eddy-resolving floats (RAFOS and MARVOR types). The data coverage achieved is remarkably high and enables a comprehensive study of the eastern basins between Iceland and the Azores. The trajectories show typical pathways of the water masses involved and the role that the complex bottom topography plays in defining them. The ISOW paths tend to lean against the slopes of the Reykjanes Ridge and Rockall Plateau. Westward escapes through multiple gaps in the ridge are possible, superimposed on a sustained southward flow in the eastern basin along the Mid-Atlantic Ridge. LSW pathways leading to the eastern basins are subject to high variability in flow direction and eddy activity. In addition to a selection of characteristic trajectories, maps of the horizontal distributions of Lagrangian eddy kinetic energy and integral time scales are presented. These reveal distinct areas of intensified mixing in the Iceland Basin, as well as the sharp contrast between the subpolar and subtropical dynamics. A self-contained eddy detection scheme is applied to obtain statistics on individual eddy properties and their abundance. It is suggested that much of the intensified mixing can be related to cyclonic activity, particularly in the subpolar region.

Description: The current system east of the Grand Banks was intensely observed by World Ocean Circulation Experiment (WOCE) array ACM-6 during 1993–95 with eight moorings, reaching about 500 km out from the shelf edge and covering the water column from about 400-m depth to the bottom. More recently, a reduced array by the Institut für Meerskunde (IfM) at Kiel, Germany, of four moorings was deployed during 1999–2001, focusing on the deep-water flow near the western continental slope. Both sets of moored time series, each about 22 months long, are combined here for a mean current boundary section, and both arrays are analyzed for the variability of currents and transports. A mean hydrographic section is derived from seven ship surveys and is used for geostrophic upper-layer extrapolation and isopycnal subdivision of the mean transports into deep-water classes. The offshore part of the combined section is dominated by the deep-reaching North Atlantic Current (NAC) with currents still at 10 cm s−1 near the bottom and a total northward transport of about 140 Sv (Sv ≡ 106 m3 s−1), with the details depending on the method of surface extrapolation used. The mean flow along the western boundary was southward with the section-mean North Atlantic Deep Water outflow determined to be 12 Sv below the σθ = 27.74 kg m−3 isopycnal. However, east of the deep western boundary current (DWBC), the deep NAC carries a transport of 51 Sv northward below σθ = 27.74 kg m−3, resulting in a large net northward flow in the western part of the basin. From watermass signatures it is concluded that the deep NAC is not a direct recirculation of DWBC water masses. Transport time series for the DWBC variability are derived for both arrays. The variance is concentrated in the period range from 2 weeks to 2 months, but there are also variations at interannual and longer periods, with much of the DWBC variability being related to fluctuations and meandering of the NAC. A significant annual cycle is not recognizable in the combined current and transport time series of both arrays. The moored array results are compared with other evidence on deep outflow and recirculation, including recent models of different types and complexity.

Description: This study investigates and accounts for the influence of various ice cloud parameters on the retrieval of the surface solar radiation budget (SSRB) from reflected flux at the top of the atmosphere (TOA). The optical properties of ice clouds depend on ice crystal shape, size distribution, water content, and the vertical profiles of geometric and microphysical structure. As a result, the relationship between the SSRB and TOA-reflected flux for an ice cloud atmosphere is more complex and differs from that for water cloud and cloudless atmospheres. The sensitivities of the relationship between the SSRB and TOA-reflected flux are examined with respect to various ice cloud parameters. Uncertainties in the retrieval of the SSRB due to inadequate knowledge of various ice cloud parameters are evaluated thoroughly. The uncertainty study is concerned with both pure ice clouds and multiphase clouds (ice cloud above water cloud). According to the magnitudes of errors in the SSRB retrieval caused by different input variables, parameterized correction terms were introduced. If the input variables are known accurately, errors in the retrieval of the SSRB under a wide range of ice cloud conditions are expected to diminish substantially, to less than 10 W m−2 for 91% of the simulated ice cloud cases. In comparison, the same accuracy may be attained for only 19% of the retrievals for the same ice cloud cases using the retrieval algorithm designed for non-ice-cloud conditions.

Description: The Vasco—Cirene field experiment, in January—February 2007, targeted the Seychelles—Chagos thermocline ridge (SCTR) region, with the main purpose of investigating Madden—Julian Oscillation (MJO)-related SST events. The Validation of the Aeroclipper System under Convective Occurrences (Vasco) experiment (Duvel et al. 2009) and Cirene cruise were designed to provide complementary views of air—sea interaction in the SCTR region. While meteorological balloons were deployed from the Seychelles as a part of Vasco, the Research Vessel (R/V) Suroît was cruising the SCTR region as a part of Cirene. more: The Vasco—Cirene program explores how strong air—sea interactions promoted by the shallow thermocline and high sea surface temperature in the Seychelles—Chagos thermocline ridge results in marked variability at synoptic, intraseasonal, and interannual time scales. The Cirene oceanographic cruise collected oceanic, atmospheric, and air—sea flux observations in this region in January—February 2007. The contemporaneous Vasco field experiment complemented these measurements with balloon deployments from the Seychelles. Cirene also contributed to the development of the Indian Ocean observing system via deployment of a mooring and 12 Argo profilers. Unusual conditions prevailed in the Indian Ocean during January and February 2007, following the Indian Ocean dipole climate anomaly of late 2006. Cirene measurements show that the Seychelles—Chagos thermocline ridge had higher-than-usual heat content with subsurface anomalies up to 7°C. The ocean surface was warmer and fresher than average, and unusual eastward currents prevailed down to 800 m. These anomalous conditions had a major impact on tuna fishing in early 2007. Our dataset also sampled the genesis and maturation of Tropical Cyclone Dora, including high surface temperatures and a strong diurnal cycle before the cyclone, followed by a 1.5°C cooling over 10 days. Balloonborne instruments sampled the surface and boundary layer dynamics of Dora. We observed small-scale structures like dry-air layers in the atmosphere and diurnal warm layers in the near-surface ocean. The Cirene data will quantify the impact of these finescale features on the upper-ocean heat budget and atmospheric deep convection.

Description: The mechanisms involved in setting the annual cycle of the Florida Current transport are revisited using an adjoint model approach. Adjoint sensitivities of the Florida Current transport to wind stress reproduce a realistic seasonal cycle with an amplitude of ~1.2 Sv (1 Sv ≡ 106 m3 s−1). The annual cycle is predominantly determined by wind stress forcing and related coastal upwelling (downwelling) north of the Florida Strait along the shelf off the North American coast. Fast barotropic waves propagate these anomalies southward and reach the Florida Strait within a month, causing an amplitude of ~1 Sv. Long baroclinic planetary Rossby waves originating from the interior are responsible for an amplitude of ~0.8 Sv but have a different phase. The sensitivities corresponding to the first baroclinic mode propagate westward and are highly influenced by topography. Considerable sensitivities are only found west of the Mid-Atlantic Ridge, with maximum values at the western shelf edge. The second baroclinic mode also has an impact on the Florida Current variability, but only when a mean flow is present. A second-mode wave train propagates southwestward from the ocean bottom on the western side of the Mid-Atlantic Ridge between ~36° and 46°N and at Flemish Cap, where the mean flow interacts with topography, to the surface. Other processes such as baroclinic waves along the shelf and local forcing within the Florida Strait are of minor importance.

Description: The residual effect of surface gravity waves on mean flows in the upper ocean is investigated using thickness weighted mean (TWM) theory applied in a vertically Lagrangian and horizontally Eulerian coordinate system. Depth-dependent equations for the conservation of volume, momentum, and energy are derived. These equations allow for (i) finite amplitude fluid motions, (ii) the horizontal divergence of currents and (iii) a concise treatment of both the kinematic and viscous boundary conditions at the sea surface. Under the assumptions of steady and monochromatic waves and a uniform turbulent viscosity, the TWM momentum equations are used to illustrate the pressure- and viscosity-induced momentum fluxes through the surface that are implicit in previous studies of the wave-induced modification of the classical Ekman spiral problem. The TWM approach clarifies, in particular, the surface momentum flux associated with the so-called virtual wave stress of Longuet-Higgins. Overall the TWM framework can be regarded as an alternative to the three-dimensional Lagrangian mean framework of Pierson. Moreover the TWM framework can be used to include the residual effect of surface waves in large-scale circulation models. In specific models that carry the TWM velocity appropriate for advecting tracers as their velocity variable, the turbulent viscosity term should be modified so that the viscosity acts only on the Eulerian mean velocity.

Description: Downward wave coupling occurs when an upward propagating planetary wave from the troposphere decelerates the flow in the upper stratosphere, and forms a downward reflecting surface that redirects waves back to the troposphere. To test this mechanism and potential factors influencing the downward wave coupling, three 145-year sensitivity simulations with NCAR’s Community Earth System Model (CESM-WACCM), a state-of-the-art high-top chemistry-climate model, are analyzed. The results show that the QBO and SST variability significantly impact downward wave coupling. Without the QBO, the occurrence of downward wave coupling is significantly suppressed. In contrast, stronger and more persistent downward wave coupling occurs when SST variability is excluded. The above influence on the occurrence of downward wave coupling is mostly due to a direct influence of the QBO and SST variability on stratospheric planetary wave source and propagation. The strengths of the tropospheric circulation and surface responses to a given downward wave coupling event, however, behave differently. The surface anomaly is significantly weaker (stronger) in the experiment with fixed SSTs (without QBO), even though the statistical signal of downward coupling is strongest (weakest) in this experiment. This apparent mismatch is explained by the differences in the strength of the synoptic-scale eddy-mean flow feedback and the possible contribution of SST anomalies in the North Atlantic during DWC event. The weaker synoptic-scale eddy-mean flow feedback, and the absence of the positive NAO-related SST-tripole pattern in the fixed SST experiment are consistent with a weaker tropospheric response in this experiment. The results highlight the importance of synoptic-scale eddies in setting the tropospheric response to downward wave coupling.

Description: The fields of immunology, microbiology, nutrition and metabolism are rapidly converging. Here we expand on a diet-microbiota model as the basis for the greater incidence of asthma and autoimmunity in developed countries.

Description: To the Editor: We congratulate Halsey et al. for their important discussion of the random nature of P values in an earlier issue of this journal1. P values from identical experiments can differ greatly in a way that is surprising to many2, 3, 4, 5, 6. The failure to appreciate this…

Description: The mammalian gastrointestinal tract, the site of digestion and nutrient absorption, harbors trillions of beneficial commensal microbes from all three domains of life. Commensal bacteria, in particular, are key participants in the digestion of food, and are responsible for the extraction and synthesis of nutrients and other metabolites that are essential for the maintenance of mammalian health. Many of these nutrients and metabolites derived from commensal bacteria have been implicated in the development, homeostasis and function of the immune system, suggesting that commensal bacteria may influence host immunity via nutrient- and metabolite-dependent mechanisms. Here we review the current knowledge of how commensal bacteria regulate the production and bioavailability of immunomodulatory, diet-dependent nutrients and metabolites and discuss how these commensal bacteria–derived products may regulate the development and function of the mammalian immune system.

Description: To the Editor: Mass spectrometry–based proteomics has become an important component of biological research. Numerous proteomics methods have been developed to identify and quantify the proteins in biological and clinical samples1, identify pathways affected by endogenous and exogenous perturbations2 and characterize protein complexes3. Despite successes, the interpretation of vast proteomics data…

Description: A method to derive salinity data from RAFOS float temperature and pressure measurements is described. It is based on evaluating the float's in situ density from its mechanical properties and in situ pressure and temperature data. The salinity of the surrounding water may then be determined, assuming that the float has reached equilibrium with its environment. This method, in comparison with the possible use of floatborne salinity cells, has the advantage of being both cost and energy neutral and highly stable in the long term. The effect on the estimated salinity of various parameters used in the determination of the float's in situ density is discussed. Results of seven RAFOS Boats deployed in the Brazil Basin are compared with corresponding CTD data to estimate the magnitude of these errors. At present, an accuracy of 0.3 psu is achieved. The accuracy may be improved to 0.02 psu by referring the float's calculated density to a reference density established by a CTD cast at the time of launch. Results from five floats deployed in the heterogeneous water masses of the Iberian Basin are compared with the corresponding CM casts to demonstrate the variability and interpretation of p-T-S float datasets from different areas.

Description: Marine Upper Jurassic sediments have recently been reported from South Africa (Knysna Outlier, Cape Province) for the first time1. They occur as shallow water, sandy clays (Brenton Beds) in association with terrestrial/fluviatile conglomerates and sandstones, which were deposited in an approximately east-west elongate intermontane basin between the Cape Fold mountains (formed of Lower Palaeozoic sediments). Post-Cretaceous erosion has reduced the original deposits to a series of small, isolated outliers, only two of which have been reported to contain marine sediments (Knysna, lower Upper Jurassic; Algoa, Valanginian2) (Fig. 1). Extensive Neocomian-Maas-trichtian outcrops are known from the continental shelf off to the south of South Africa3, and a complete mid-Jurassic to Upper Cretaceous marine succession is suspected on the Agulhas Bank infilling and overlying east-west striking, fault bounded folds of Lower Palaeozoic Cape Supergroup rocks as shown in Fig. 1 (R. V. D., in preparation and refs. 1 and 4).

Description: A SIMPLE model for continental basement structures at rifted continental margins comprises large fault blocks which trend approximately parallel to, and step down towards, the continental–ocean boundary (for example, see ref. 1). These blocks may be cut by faults which strike across the margin, and, in many theoretical discussions, are shown as being separated from the true oceanic crust by an intermediate zone (see transitional crust of Fig. 3, ref. 2). On many rifted margins these features are deeply buried by young sediments and cannot be stutied in detail. On Goban Spur (Fig. 1), a marginal plateau south-west of Ireland, the young sediment cover is abnormally thin, however, and we have been able to map in detail a 150 km wide continental basement fracture pattern of horsts and grabens using a simple seismic reflection system (160 inch3 air-gun and two-channel hydrophone array). We also suggest a location for the continent–ocean boundary between the Spur and Porcupine Abyssal Plain. There are few previously published data from Goban Spur relevant to our study, although valuable sampling3 and geophysical3–5 results have been obtained north and south of the area.

Description: In bacteria, foreign nucleic acids are silenced by clustered, regularly interspaced, short palindromic repeats (CRISPR)--CRISPR-associated (Cas) systems. Bacterial type II CRISPR systems have been adapted to create guide RNAs that direct site-specific DNA cleavage by the Cas9 endonuclease in cultured cells. Here we show that the CRISPR-Cas system functions in vivo to induce targeted genetic modifications in zebrafish embryos with efficiencies similar to those obtained using zinc finger nucleases and transcription activator-like effector nucleases.

Description: Data from a surface mooring located in the Sargasso Sea at 34°N, 70°W between May 1982 and May 1984 were compared with satellite data to investigate large diurnal sea surface temperature changes. Mooring and satellite measurements are in excellent agreement for those days on which no clouds covered the site at the time of the satellite pass. During the summer half-year at this site, there is a 20% charm of diurnal warming of more than 0.5°C, with values of up to 3.5°C observed in the two-year period. Diurnal warming observed at the mooring has been simulated well by a one-dimensional model driven by local beat and momentum fluxes. Under the conditions of very light wind and strong insolation that produce the Largest surface warming, the surface mixed-layer depth reduces to the convection depth, and wind-mixing becomes unimportant. The thermal response is then limited to depths between 1 and 2 m, making it likely that such events have been underreported in routine ship observations. In all cases observed, the spatial extent of warming events as determined by satellite data are well correlated with the corresponding atmospheric pressure patterns. Conditions giving rise to the largest diurnal warming events are often associated with a westward-extending ridge of the Bermuda high. In the region studied, 57°–75°W and 29°–43°N, diurnal warming of more than 1°C was found on occasion to cover areas in excess of 300 000 km2, with warming of more than 2°C coveting areas in excess of 130 000 km2.

Description: Hurricanes and other strong storms can cause important decreases in sea surface temperature by means of vertical mixing within the upper ocean, and by air–sea heat exchange. Here we use satellite-derived infrared images of the western North Atlantic to study sea surface cooling caused by hurricane Gloria (1985). Significant regional variations in sea surface cooling are well correlated with hydrographic conditions. The greatest cooling (up to 5°C) occurred in slope waters north of the Gulf Stream where the seasonal thermocline is shallowest and most compressed; moderate cooling (up to 3 °C) occurred in the open Sargasso Sea where the thermocline is deeper and more diffused; little or no cooling occurred in shallow coastal waters (bottom depth less than 20 m) which were isothermal before the passage of hurricane Gloria. There is a pronounced right-side asymmetry of sea surface cooling with stronger (by a factor of 4) and more extensive (by a factor of 3) cooling found on the right side of the hurricane track. These qualitative results are consistent with the notion that vertical mixing within the upper ocean is the dominant sea surface cooling mechanism of hurricanes.

Description: In this paper we use the historical hydrographic data base for the South Atlantic Ocean to investigate (i) the hydrographic boundary between the subtropical gyre and the Antarctic Circumpolar Current (ACC), the Sub-tropical Front (STF), and (ii) the southern current band of the gyre, which is called the South Atlantic Current (SAC). The STF begins in the west in the Brazil-Falkland (Malvinas) confluence zone, but at locations at and west of 45°W this front is often coincident with the Brazil Current front. East of 45°W the STF appears to be a distinct feature to at least the region south of Africa, whereupon it continues into the Indian Ocean. The associated current band of increased zonal speed is the SAC, which, except for one instance, is found at or north of the surface STF until Indian Ocean water from the Agulhas retroflection is reached. A reversal of baroclinicity in the STF is observed south of a highly saline Agulhas ring, causing the SAC to separate from the STF and turn north into the Benguela Current. Zonal flow south of the STF is generally weak and serves to separate the South Atlantic and circumpolar currents. In the Argentine Basin, the SAC has a typical volume transport of 30 Sv (1 Sv = 106m3s−1) in the upper 1000 m relative to a deep potential density surface (σ4 = 45.87 kg m−3), and can be as high as 37 Sv. It is thus comparable to, or stronger than, the Brazil Current. In the Cape Basin, the transport of the SAC is reduced to about 15 SY before it turns north to feed the Benguela Current. In late 1983 this flow was joined by about 8 Sv of water from the Agulhas Current.

Description: Historical data from the region between the Greenwich meridian and the African continental shelf are used to compute the offshore geostrophic transport of the Benguela Current. At 32°S, the Benguela Current is located near the African coast, transporting about 21 Sv (1 Sv = 106 m3 s−1) of surface water toward the north relative to a potential density surface lying between the upper branch of Circumpolar Deep Water and the North Atlantic Deep Watar. Two warm core eddies of probable Agulhas Current origin an observed west of the Benguela Current at 32°S. Near 30°S, the Benguela Current turns toward the northwest and begins to separate from the eastern boundary. It carries about 18 Sv of surface water across 28°S. The current then turns mainly toward the west to flow over a relatively deep segment of the Walvis Ridge south of the Valdivia Bank. A surface current with northward surface of about 10 cm s−1 flows along the western side of the Valdivia Bank, while another northward surface current flows at about 20 cm s−1 some 300 km west of the bank. About 3 Sv of surface now do not leave the Cape Basin south of the Vaidivia Bank, but instead drift northward as a wide. sluggish flow out of the northern end of the Cape Basin. Because of the more southerly seaward extensions of most of the Benguela Current, there are no deep-reaching interactions observed between this current and the cyclonic gyre in the Angola Basin east of the Greenwich meridian. Beneath the surface layer, about 4–5 Sv of Antarctic Intermediate Water are carried northward across 32° and 28°S by the Benguela Current, essentially all of which turns westward to cross the Greenwich meridian south of 24°S.

Description: Breaking waves markedly increase the rates of air–sea transfer of momentum, energy and mass. In light to moderate wind conditions, spilling breakers with short wavelengths are observed frequently. Theory and laboratory experiments have shown that, as these waves approach breaking in clean water, a ripple pattern that is dominated by surface tension forms at the crest. Under laboratory conditions and in theory, the transition to turbulent flow is triggered by flow separation under the ripples, typically without leading to overturning of the free surface15. Water surfaces in nature, however, are typically contaminated by surfactant films that alter the surface tension and produce surface elasticity and viscosity16, 17. Here we present the results of laboratory experiments in which spilling breaking waves were generated mechanically in water with a range of surfactant concentrations. We find significant changes in the breaking process owing to surfactants. At the highest concentration of surfactants, a small plunging jet issues from the front face of the wave at a point below the wave crest and entraps a pocket of air on impact with the front face of the wave. The bubbles and turbulence created during this process are likely to increase air–sea transfer.

Description: An XBT interface is described for use with Commodore and other 6502 based microprocessors. This interface takes the form of a single circuit board mounted inside the microcomputer and is completely software controlled. The application of this digital XBT system to the real-time computation of density and dynamic height, using historical or recent temperature-salinity relationships, is also described. Comparison between XBT and CTD measured temperatures from the Northeast Atlantic yield a mean temperature difference of −0.08°C and an rms temperature difference of 0.33°C for the upper 800 m. Examples of dynamic topography maps and a temperature section computed using this technique are also presented and comparison between objectively analyzed XBT and CTD dynamic topographies demonstrates the reliability of the method for mapping the baroclinic flow.

Description: In this study a scenario is developed of two adjacent Mediterranean Water eddies (meddies) as they were observed merging and drifting through the Iberian Basin. Observations are based on four RAFOS floats (at 850–1050 dbar), two hydrographic surveys (centered roughly at 38°N, 24°W), and trajectories of surface drifters (drogued at 100 m). In April 1991, the meddy A was identified and labeled by surface drifters. During the revisit one month later two meddies were encountered, B1 and B2, in the vicinity of the former meddy A. The coalescence of B1 (subsequently identified as A, one month older) and B2 is inferred from a simple kinematic model describing the observed movement of the RAFOS floats for up to three months after the second CTD survey. The deduced vorticity front, radius ∼15 km, within B1 was of insufficient strength to keep the core waters of B1 isolated and prevent the absorption of B1 by B2. The resulting meddy (B1 + B2) showed a clear near-surface dynamical signal. Its deep root (1800 m) could explain the expulsion from the meddy of the remaining RAFOS float and surface drifter at the time of the meddy's collision with the Josephine Seamount. For the first time, a set of Lagrangian and hydrographic observations give direct evidence that neighboring meddies can merge as predicted by theoretical considerations.

Description: The total transport of Antarctic Bottom Water across the Rio Grande Rise, including the western boundary, the Vema Channel, and the Hunter Channel is estimated from hydrographic measurements across these pathways. The contribution of the Vema Channel is greatest at 3.9 × 106 m3 s−1, which is very close to earlier estimates. The western boundary current contribution is 2.0 × 106 m3 s−1 and that of the Hunter Channel 0.7 × 106 m3 s−1. The lower values outside the Vema Channel are offset by the important source of mass they form to the lower density classes of bottom water. About 40% of the flow is concentrated in the highest density class representing the source of Weddell Sea Deep Water to the Brazil Basin. The flow structure is characterized by horizontal and vertical recirculation.

Description: The existence of energetic anticyclonic mid-depth vortices of Mediterranean Water (meddies) questions the validity of a conventional advective–diffusive balance in the eastern Atlantic subtropical gyre. A mesoscale experiment in the Azores–Madeira region reveals a link of these meddies to large-scale subsurface meanders. For the first time it is shown that meddies may have strong surface vorticity, indicative of a generation process involving the Azores Current—a deep reaching near-surface jet.

Description: There has been concern about recent temperature trends and the future effects of CO2 concentrations in the atmosphere1,2; but instrumental records only cover a few decades to a few centuries and it is essential that proxy data sources, such as pollen spectra from peats and lake sediments, be carefully interpreted as climate records. Several workers have shown statistically significant associations between the modern pollen rain and climatic parameters, an approach that by-passes the recognition of pollen/vegetation units. Statistically defined equations that associate abiotic and biotic elements are called transfer functions. We report here on the application of transfer function equations to nine middle and late Holocene peat and lake sediment sequences from northern Canada (Fig. 1).

Description: In this paper, the historical hydrographic database for the south Indian Ocean is used to investigate (i) the hydrographic boundary between the subtropical gyre and the Antarctic Circumpolar Current (ACC), the subtropical front (STF), and especially (ii) the southern current band of the gyre. A current band of increased zonal speeds in the upper 1000 m is found just north of the STF in the west near South Africa and at the surface STF in the open Indian Ocean until the waters off the coast of Australia are reached. As neither any other investigation of this current nor a name for it are known, the flow has been called the South Indian Ocean Current (SIOC). This name is anologous to the same current band in the South Atlantic Ocean, the South Atlantic Current. The STF is located in the entire south Indian Ocean near 40-degrees-S. The associated current band of increased zonal speeds is the SIOC, which is found at or north of the STF. East of 100-degrees-E the SIOC separates from the STF and continues to the northeast. The zonal flow south of the STF is normally weak and serves to separate the South Indian Ocean and Circumpolar currents. Near Africa the SIOC has a typical volume transport of 60 Sv (1 Sv = 10(6) m3 s-1) in the upper 1000 m relative to deep potential density surfaces of sigma(4) = 45.87 kg m-3 (2800-3500 m) or sigma(2) = 36.94 kg m-3 (1500-2500 m). Near western Australia the SIOC is reduced to about 10 Sv as it turns to the northeast.

Description: Hydrothermal vents emit sulphur and metals to the ocean1. Particular attention has been paid to hydrothermal fluxes of iron2–4, a limiting micronutrient of marine primary production5. Vent-derived ironwas previously thought to rapidly oxidize and precipitate around vents6. However, organic matter can bind to and stabilize dissolved and particulate iron in hydrothermal plumes7–9, facilitating its dispersion into the open ocean10. Here, we report measurements of the chemical speciation of sulphide and iron in high-temperature fluids emanating from vents in the East Pacific Rise and the Eastern Lau Spreading Center. We show that pyrite nanoparticles—composed of iron and sulphur—account for up to 10% of the filterable iron (less than 200nm in size) in these fluids. We suggest that these particles form before the discharge of the vent fluid. We estimate that pyrite nanoparticles sink more slowly than larger plume particles, and are more resistant to oxidation than dissolved Fe(II) and FeS.We suggest that the discharge of iron in the form of pyrite nanoparticles increases the probability that vent-derived iron will be transported over long distances in the deep ocean.

Description: The microenvironmental dynamics of the microbial mat of black band disease (BBD) and its less virulent precursor, cyanobacterial patch (CP), were extensively profiled using microsensors under different light intensities with respect to O(2), pH and H(2)S. BBD mats exhibited vertical stratification into an upper phototrophic and lower anoxic and sulphidic zone. At the progression front of BBD lesions, high sulphide levels up to 4977 μM were measured in darkness along with lower than ambient levels of pH (7.43±0.20). At the base of the coral-BBD microbial mat, conditions were hypoxic or anoxic depending on light intensity exposure. In contrast, CP mats did not exhibit strong microchemical stratification with mostly supersaturated oxygen conditions throughout the mats at all light intensities and with levels of pH generally higher than in BBD. Two of three replicate CP mats were devoid of sulphide, while the third replicate showed only low levels of sulphide (up to 42 μM) present in darkness and at intermediate light levels. The level of oxygenation and sulphide correlated well with lesion migration rates, that is virulence of the mats, which were greater in BBD than in CP. The results suggest that biogeochemical microgradients of BBD shaped by the complex microbial community, rather than a defined pathogen, are the major trigger for high virulence and the associated derived coral mortality of this disease.

Description: Many aspects of barnacle body form are known to be developmentally plastic. Perhaps the most striking examples of such plasticity occur in their feeding legs and unusually long penises, the sizes and shapes of which can change dramatically and adaptively with changes in conspecific density and local water flow conditions. However, whether variation in overall appendage form is mirrored by structural responses in cuticle and muscle is not known. In order to determine how structural variation underlies phenotypic plasticity in barnacle appendages, we examined barnacles occurring at low and high population densities from one wave-protected and one wave-exposed site. We used histological sectioning and fluorescence microscopy of feeding legs and penises to compare cuticle thickness, muscle thickness, and muscle organization, and artificial penis inflation to compare penis extensibility. We observed striking differences in cuticle thickness, muscle thickness, and muscle organization between sites that differed in water velocity, but we found no clear differences associated with variation in conspecific density. Penis extensibility also did not differ consistently between sites. These results are consistent with an adaptive explanation for much of the remarkable and complex variation in barnacle feeding leg and penis morphology among sites that differ in water velocity.

Description: Organic detritus passing from the sea surface through the water column to the sea floor controls nutrient regeneration, fuels benthic life and affects burial of organic carbon in the sediment record. Particle trap systems have enabled the first quantification of this important process. The results suggest that the dominant mechanism of vertical transport is by rapid settling of rare large particles, most likely of faecal pellets or marine snow of the order of 〉200 μm in diameter, whereas the more frequent small particles have an insignificant role in vertical mass flux4–6. The ultimate source of organic detritus is biological production in surface waters of the oceans. I determine here an empirical relationship that predicts organic carbon flux at any depth in the oceans below the base of the euphotic zone as a function of the mean net primary production rate at the surface and depth-dependent consumption. Such a relationship aids in estimating rates of decay of organic matter in the water column, benthic and water column respiration of oxygen in the deep sea and burial of organic carbon in the sediment record.

Description: There is evidence that the strengthened stratospheric westerlies arising from the Antarctic ozone hole–induced cooling cause a polar mesospheric warming and a subsequent cooling in the lower thermosphere. While previous studies focus on the role of nonresolved (gravity) wave drag filtering, here the role of resolved (planetary) wave drag and radiative forcing on the Antarctic mesosphere and lower thermosphere (MLT) is explored in detail. Using simulations with NCAR’s Community Earth System Model, version 1 (Whole Atmosphere Community Climate Model) [CESM1(WACCM)], it is found that in late spring and early summer the anomalous polar mesospheric warming induced by easterly nonresolved wave drag is dampened by anomalous dynamical cooling induced by westerly resolved wave drag. This resolved wave drag is attributed to planetary-scale wave (k = 1–3) activity, which is generated in situ as a result of increased instability of the summer mesospheric easterly jet induced by the ozone hole. On the other hand, the anomalous cooling in the polar lower thermosphere induced by westerly nonresolved wave drag is enhanced by anomalous dynamical cooling due to westerly resolved wave drag. In addition, radiative effects from increased greenhouse gases during the ozone hole period contribute partially to the cooling in the polar lower thermosphere. The polar MLT temperature response to the Antarctic ozone hole is, through thermal wind balance, accompanied by the downward migration of anomalous zonal-mean wind from the lower thermosphere to the stratopause. The results highlight that a proper accounting of both dynamical and radiative effects is required in order to correctly attribute the causes of the polar MLT response to the Antarctic ozone hole.

Description: The Southern Hemisphere Subtropical Front (STF) is a narrow zone of transition between upper-level subtropical waters to the north and subantarctic waters to the south. It is found near 40 degrees S across the South Atlantic and South Indian Oceans and is associated with an eastward geostrophic current band, The current band in each basin is found at or just north of the surface front except near the eastern boundaries where most of the subtropical waters turn north into the eastern limbs of the subtropical gyres. The bands associated with the STF are thus distinct features separated from the strong zonal flows of the Antarctic Circumpolar Current farther south. The authors have referred to the current bands in the two respective oceans as the South Atlantic Current and the South Indian Ocean Current. In this paper the authors use the historical database from the South Pacific Ocean to investigate the geostrophic flow associated with the STF there. The STF extends across the southern Tasman Sea from south of Tasmania to southern New Zealand, and a weak eastward flow appears to be associated with it. The transport amounts to only about 3 Sv (1Sv = 10(6) m(3) s(-1)), little of which passes south of New Zealand. Mixing within the eddy-rich Tasman Sea may account for this weakness, while also setting up another more significant front in the northern Tasman Sea, the Tasman Front. It branches off from the East Australian Current toward the north of New Zealand, along which moves a flow of about 14 Sv. After passing north of New Zealand, a portion of this current flows east to contribute to a current band near 30 degrees S, while another portion turns south as the East Auckland Current and meets with subantarctic waters near Chatham Rise (44 degrees S), thus reestablishing the STF. An enhanced eastward current band is associated with the front there, one that extends across the remainder of the South Pacific and is referred to as the South Pacific Current. In comparison with its counterparts in the other basins, which typically begin by carrying 30 Sv (Atlantic) to 60 Sv (Indian) in the upper 1000 m in their western portions before weakening to 10-15 Sv in the east, the South Pacific Current is weak. Near Chatham Rise, it starts with a transport of approximately 5 Sv, and it remains near this strength as it shifts gradually north across the basin toward South America. The current appears to split into two smaller bands in the region of 115 degrees-85 degrees W, while near 28 degrees 5, 83 degrees W it begins to turn more strongly north and becomes shallower and weaker. Potential vorticity distributions indicate that this current acts as an impediment toward the northward spreading of Antarctic Intermediate Water, But why the South Pacific Current east of New Zealand should be so much weaker than its counterparts in the other basins is not particularly clear. It may be due to the presence of New Zealand and other topographic barriers to deep now east of Australia, to the axis of the subtropical gyre in the South Pacific shifting more rapidly southward with depth than those elsewhere, thus causing greater reductions in the underlying zonal velocities, and to strong poleward eddy heat and salt fluxes in the other two basins leading to smaller cross-STF gradients in the Pacific.

Description: Large amounts of the greenhouse gas methane are released from the seabed to the water column1, where it may be consumed by aerobic methanotrophic bacteria2. The size and activity of methanotrophic communities, which determine the amount of methane consumed in the water column, are thought to be mainly controlled by nutrient and redox dynamics3–7. Here, we report repeated measurements of methanotrophic activity and community size at methane seeps west of Svalbard, and relate them to physical water mass properties and modelled ocean currents. We show that cold bottom water, which contained a large number of aerobic methanotrophs, was displaced by warmer water with a considerably smaller methanotrophic community within days. Ocean current simulations using a global ocean/sea-ice model suggest that this water mass exchange is consistent with short-term variations in the meandering West Spitsbergen Current. We conclude that the shift from an offshore to a nearshore position of the current can rapidly and severely reduce methanotrophic activity in the water column. Strong fluctuating currents are common at many methane seep systems globally, and we suggest that they affect methane oxidation in the water column at other sites, too.

Description: The suggestion is advanced that the remarkably low static stability of Antarctic surface waters may arise from a feedback loop involving global deep-water temperatures. If deep-water temperatures are too warm, this promotes Antarctic convection, thereby strengthening the inflow of Antarctic Bottom Water into the ocean interior and cooling the deep ocean. If deep waters are too cold, this promotes Antarctic stratification allowing the deep ocean to warm because of the input of North Atlantic Deep Water. A steady-state deep-water temperature is achieved such that the Antarctic surface can barely undergo convection. A two-box model is used to illustrate this feedback loop in its simplest expression and to develop basic concepts, such as the bounds on the operation of this loop. The model illustrates the possible dominating influence of Antarctic upwelling rate and Antarctic freshwater balance on global deep-water temperatures.