Abundance and Biomass from heterotrophic bacteria, Synechococcus, Prochlorococcus and Virus in the eastern Mediteranean Sea in October 2008 during SES_GR2

The HCMR_SES_LAGRANGIAN_GR2_ MICROBIAL PARAMETERS dataset is based on samples collected in the framework of the project SESAME, in the North Aegean Sea during October 2008. The objectives were to measure the standing stocks and calculate the production of the microbial compartment of the food web, describe the vertical distribution pattern and characterize its structure and function through the water column as influenced by the BSW. Heterotrophic bacteria, Synechococcus, Prochlorococcus and Virus abundance: Subsamples for virus, heterotrophic bacteria and cyanobacteria (Synechococcus spp. and Prochlorococcus spp.) counting were analyzed using a FACSCalibur (Becton Dickinson) flow cytometer equipped with a standard laser (488 nm) and filter set and using deionized water as sheath fluid. Fluorescent beads with a diameter of 0.97 µm (Polysciences) were added to each sample as an internal standard, and all parameters were normalized to the beads and expressed as relative units. SYBRGreen I stain (Molecular Probe) was used to stain viral and heterotrophic bacterial DNA. Viruses were counted according to (Brussaard 1984). In order to avoid bulk consentrations of viruses samples we dilluted to Tris-EDTA (pH=8,0) buffer to a final sollution of 1/5 to 1/100. Total abundance and nucleid content classes were calculated using the Paint-A-Gate software (Becton Dickinson). Heterotrophic Nanoflagellate abundance: Subsamples (30-150 ml) were concentrated on 25mm black polycarbonate filters of porosity 0.6?m and stained with DAPI for 10 min (Porter and Feig 1980). Under epifluorescence microscopy heterotrophic nanoflagellates (HNAN) were distinguished using UV and blue excitation and enumerated. Nanoflagellates were classified in size categories and the biovolume was calculated. Ciliate abundance: For ciliate identification and enumeration, 100-3000 ml samples were left for 24h-4d for sedimentation and then observed under an inverted microscope. Ciliates were counted, distinguished into size-classes and major taxonomic groups and identified down to genus or species level where possible (Pitta et al. 2005). Heterotrophic bacteria, Synechococcus, Prochlorococcus bacteria: Subsamples for virus, heterotrophic bacteria and cyanobacteria (Synechococcus spp. and Prochlorococcus spp.) counting were analyzed using a FACSCalibur (Becton Dickinson) flow cytometer equipped with a standard laser (488 nm) and filter set and using deionized water as sheath fluid. Fluorescent beads with a diameter of 0.97 µm (Polysciences) were added to each sample as an internal standard, and all parameters were normalized to the beads and expressed as relative units. SYBRGreen I stain (Molecular Probe) was used to stain viral and heterotrophic bacterial DNA. Viruses were counted according to (Brussaard 1984). In order to avoid bulk consentrations of viruses samples we dilluted to Tris-EDTA (pH=8,0) buffer to a final sollution of 1/5 to 1/100. Total abundance and nucleid content classes were calculated using the Paint-A-Gate software (Becton Dickinson). Abundance data were converted into C biomass using 250 fgC cell-1 (Kana & Glibert 1987) for Synechococcus, 50 fgC cell-1 (Campbell et al. 1994) for Prochlorococcus and 20fgC cell-1 (Lee & Fuhrman 1987) for heterotrophic bacteria. Heterotrophic Nanoflagellate biomass: Subsamples (30-150 ml) were concentrated on 25mm black polycarbonate filters of porosity 0.6µm and stained with DAPI for 10 min (Porter and Feig 1980). Under epifluorescence microscopy heterotrophic nanoflagellates (HNAN) were distinguished using UV and blue excitation and enumerated. Nanoflagellates were classified in size categories and the biovolume was calculated. Abundance data were converted into C biomass using 183 fgC µm**3 (Caron et al. 1995). Ciliate biomass: For ciliate identification and enumeration, 100-3000 ml samples were left for 24h-4d for sedimentation and then observed under an inverted microscope. Ciliates were counted, distinguished into size-classes and major taxonomic groups and identified down to genus or species level where possible (Pitta et al. 2005). Ciliate cell sizes were measured and converted into cell volumes using appropriate geometric formulae using image analysis. For biomass estimation, the conversion factor 190 fgC µm**3 was used (Putt and Stoecker 1989).

Late Cretaceous planktonic foraminiferal assemblages from the Exmouth Plateau, ODP Sites 122-762 and 122-763, eastern Indian Ocean

The evolution of planktonic foraminifera during the Late Cretaceous is marked in the Santonian by the disappearance of complex morphotypes (the marginotruncanids), and the contemporary increasing importance and diversification of another group of complex taxa, the globotruncanids. Upper Turonian to lower Campanian planktonic foraminiferal assemblages from Holes 762C and 763B (Ocean Drilling Program, Leg 122, Exmouth Plateau, 47°S palaeolatitude) were studied in detail to evaluate the compositional variations at the genus and species level based on the assumption that, in the Cretaceous oceans as in the modern, any faunal change was associated with changes in the characteristics and the degree of stability of the oceanic surface waters. Three major groups were recognised based on gross morphology, and following the assumption that Cretaceous planktonic foraminifera, although extinct, had life-history strategies comparable to those of modern planktonics: 1 - r-selected opportunists; 2 - k-selected specialists; 3 - r/k intermediate morphotypes which include all genera that display a range of trophic strategies in-between opportunist and specialist taxa. Although planktonic foraminiferal assemblages are characterised by a progressive appearance of complex taxa, this trend is discontinuous. Variation in number of species and specimens within genera has allowed recognition of five discrete intervals each of them reflecting different oceanic conditions based on fluctuations in diversity and abundance of the major morphotypes. Planktonic forms show cyclical fluctuations in diversity and abundance of cold (r-strategists) and warm taxa (k-strategists), perhaps representing alternating phases of unstable conditions (suggesting a weakly stratified upper water column in a mesotrophic environment), and well-stratified surface and near-surface waters (indicating a more oligotrophic environment). Interval 1, middle Turonian to early Coniacian in age, is dominated by the r/k intermediate morphotypes which alternate with r-strategists. These cyclical alternations are used to identify three additional subintervals. Interval 2, aged middle to late Coniacian, is characterised by the increasing number of species and relative abundance of k-strategists. After this maximum diversification the k-strategists show a progressive decrease reaching a minimum value in Interval 3 (early to late Santonian), which corresponds to the extinction of the genus Marginotruncana. In the Interval 4, latest Santonian in age, the k-strategists, represented mainly by the genera Globotruncana, increase again in diversity and abundance. The last Interval 5 (early Campanian) is dominated by juvenile globotruncanids and r-strategists which fluctuate in opposite phase. The positive peak (Interval 2) related to the maximum diversification of warm taxa (k-strategists) in the Coniacian seems to correspond to a warmer episode. It is followed by a marked decrease in the relative abundance of warm taxa (k-strategists crisis) with a minimum in the late Santonian (Interval 3), reflecting a decrease in temperature. Detailed analysis of faunal variations allows the Santonian faunal turnover to be ascribed to a cooling event strong enough to cause the extinction of the marginotruncanids.

Bacterioplankton and bacteriobenthos in surface layer waters and sediments between the Sakhalin Island and the Eastern Asia in June 2006

This work presents results of a study of plankton and benthic microbiocenoses of the Amur River estuary. It is shown that distribution of total abundance and indicator groups of bacteriobenthos are characterized by stronger heterogeneity compared with bacterioplankton and that it depends on the Amur River runoff and bottom type. The river runoff helps by increasing overall bacterioplankton abundance in the near-mouth part of the estuary. Microorganisms utilizing low concentrations of organic matter (OM) play major role in processes of OM utilization in water and bottom sediments. Saprophytic bacteria play a significant role in OM utilization only in water at certain sampling sites in the Tatarsky Strait and Sakhalin Bay and in bottom sediments sampled in the mouth part of the estuary. Some parts of the estuary subjected to organic contamination are found according to microbiological characteristics. It is shown that fluctuation of salinity leads to change of the role of bacteria with different food demands in the microbial community.

Observed El Niño conditions in the eastern tropical Pacific in October 2015

A strong El Niño developed in early 2015. Measurements from a research cruise on the RV Sonne in October 2015 near the equator east of the Galapagos Islands and off the shelf of Peru, are used to investigate changes related to El Niño in the upper ocean in comparison with earlier cruises in this region. At the equator at 85°30' W, a clear temperature increase leading to lower densities in the upper 350 m, despite a concurrent salinity increase from 40 to 350 m, developed in October 2015. Lower nutrient concentrations were also present in the upper 200 m, and higher oxygen concentrations were observed between 40 and 130 m. Except for the upper 60 m at 2°30' S, however, there was no obvious increase in oxygen concentrations at sampling stations just north (1° N) and south (2°30' S) of the equator at 85°30' W. In the equatorial current field, the Equatorial Undercurrent (EUC) east of the Galapagos Islands almost disappeared in October 2015, with a transport of only 0.02 Sv in the equatorial channel between 1° S and 1° N, and a weak current band of 0.78 Sv located between 1° S and 2°30' S. Such near-disappearances of the EUC in the eastern Pacific seem to occur only during strong El Niño events. Off the Peruvian shelf at ~9° S, where the sea surface temperature (SST) was elevated, upwelling was modified, and warm, saline and oxygen rich water was upwelled. Despite some weak El Niño related SST increase at ~12 to 16° S, the upwelling of cold, low salinity and oxygen-poor water was still active at the easternmost stations at three sections at ~12° S, ~14° S and ~16° S, while further west on these sections a transition to El Niño conditions appeared. Although in early 2015 the El Niño was strong and in October 2015 showed a clear El Niño influence on the EUC, in the eastern tropical Pacific the measurements only showed developing El Niño water mass distributions. In particular the oxygen distribution indicated the ongoing transition from 'typical' to El Niño conditions progressing southward along the Peruvian shelf.

Physical oceanography from eight Seaglider missions in the Mediterranean Sea, Eastern Basin

In 2008, the Oceanography Center at the University of Cyprus acquired two underwater gliders in the framework of a nationally-managed infrastructure upgrade program. The gliders were purchased from the Seaglider Fabrication Center at the University of Washington. Both gliders are rated to 1000 m and carry a typical sensor payload: non-pumped conductivity-temperature-depth sensors (CTD), a dissolved oxygen sensor, an optical triplet to measure optical backscatter at 400 nm, 700 nm, and chlorophyll-a fluorescence. Since March of 2009, the gliders have been used in a long-term observing program of the Cypriot EEZ, and by September 2015, have covered more than 15300 km over ground and 3500 dive cycles in 940 glider days. Butterfly patterns have been flown in two configurations, either on the western or eastern side of the EEZ south of Cyprus. The glider endurance lines criss-cross the region in order to more accurately locate and investigate the mesoscale structures south of Cyprus, and in particular the Cyprus eddy which is often the dominant feature. Based on the near real time observations, the glider mission was sometimes altered in order to more fully sample the Cyprus eddy, or to locate its center or extent. A summary of the raw and processed data collected, and the quality control procedures are presented, in order for future users to take advantage of this unique data set.

Sea-floor videos and photographs (benthos) along 6 shelf profiles from the eastern Weddell Sea, Antarctica taken with remote operated vehicel CHEROKEE during Polarstern cruise ANT-XXI/2

The ROV operations had three objectives: (1) to check, whether the "Cherokee" system is suited for advanced benthological work in the high latitude Antarctic shelf areas; (2) to support the disturbance experiment, providing immediate visual Information; (3) to continue ecological work that started in 1989 at the hilltop situated at the northern margin of the Norsel Bank off the 4-Seasons Inlet (Weddell Sea). The "Cherokee" is was equipped with 3 video cameras, 2 of which support the operation. A high resolution Tritech Typhoon camera is used for scientific observations to be recorded. In addition, the ROV has a manipulator, a still camera, lights and strobe, compass, 2 lasers, a Posidonia transponder and an obstacle avoidance Sonar. The size of the vehicle is 160 X 90 X 90cm. In the present configuration without TMS (tether management system) the deployment has to start with paying out the full cable length, lay it in loops on deck and connect the glass fibres at the tether's spool winch. After a final technical check the vehicle is deployed into the water, actively driven perpendicular to the ship's axis and floatings are fixed to the tether. At a cable length of approx. 50 m, the tether is tightened to the depressor by several cable ties and both components are lowered towards the sea floor, the vehicle by the thruster's propulsion and the depressor by the ship's winch. At 5 m intervals the tether has to be tied to the single conductor cable. In good weather conditions the instruments supporting the navigation of the ROV, especially the Posidonia system, allow an operation mode to follow the ship's course if the ship's speed is slow. Together with the lasers which act as a scale in the images they also allow a reproducible scientific analysis since the transect can be plotted in a GIS system. Consequently, the area observed can be easily calculated. An operation as a predominantly drifting system, especially in areas with bottom near currents, is also possible, however, the connection of the tether at the rear of the vehicle is unsuitable for such conditions. The recovery of the system corresponds to that of the deployment. Most important is to reach the surface of the sea at a safe distance perpendicular to the ship's axis in order not to interfere with the ship's propellers. During this phase the Posidonia transponder system is of high relevance although it has to be switched off at a water depth of approx. 40 m. The minimum personal needed is 4 persons to handle the tether on deck, one person to operate the ship's winch, one pilot and one additional technician for the ROV's operation itself, one scientist, and one person on the ship's bridge in addition to one on deck for whale watching when the Posidonia system is in use. The time for the deployment of the ROV until it reaches the sea floor depends on the water depth and consequently on the length of the cable to be paid out beforehand and to be tightened to the single conductor cable. Deployment and recovery at intermediate water depths can last up to 2 hours each. A reasonable time for benthological observations close to the sea floor is 1 to 3 hours but can be extended if scientifically justified. Preliminary results: after a first test station, the ROV was deployed 3 times for observations related to the disturbance experiment. A first attempt to Cross the hilltop at the northern margin of the Norsel Bank close to the 4- Seasons Inlet was successful only for the first hundreds of metres transect length. The benthic community was dominated in biomass by the demosponge Cinachyra barbata. Due to the strong current of approx. 1 nm/h, the design of the system, and an expected more difficult current regime between grounded icebergs and the top of the hilltop the operation was stopped before the hilltop was reached. In a second attempt the hilltop was successfully crossed because the current and wind situation was much more suitable. In contrast to earlier expeditions with the "sprint" ROV it was the first time that both slopes, the smoother in the northeast and the steeper in the southwest were continuously observed during one cast. A coarse classification of the hilltop fauna shows patches dominated by single taxa: cnidarians, hydrozoans, holothurians, sea urchins and stalked sponges. Approximately 20 % of the north-eastern slope was devastated by grounding icebergs. Here the sediments consisted of large boulders, gravel or blocks of finer sediment looking like an irregularly ploughed field. On the Norsel Bank the Cinachyra concentrations were locally associated with high abundances of sea anemones. Total observation time amounted to 11.5 hours corresponding to almost 6-9 km transect length.

Circulation, eddies, oxygen and nutrient changes in the eastern tropical South Pacific Ocean

A large, subsurface oxygen deficiency zone is located in the eastern tropical South Pacific Ocean (ETSP). The large-scale circulation in the eastern equatorial Pacific and off Peru in November/December 2012 shows the influence of the equatorial current system, the eastern boundary currents, and the northern reaches of the subtropical gyre. In November 2012 the Equatorial Undercurrent is centered at 250 m depth, deeper than in earlier observations. In December 2012 the equatorial water is transported southeastward near the shelf in the Peru-Chile Undercurrent with a mean transport of 1.6 Sv. In the oxygen minimum zone (OMZ) the flow is overlaid with strong eddy activity on the poleward side of the OMZ. Floats with parking depth at 400 m show fast westward flow in the mid-depth equatorial channel and sluggish flow in the OMZ. Floats with oxygen sensors clearly show the passage of eddies with oxygen anomalies. The long-term float observations in the upper ocean lead to a net community production estimate at about 18° S of up to 16.7 mmol C m?3 yr1 extrapolated to an annual rate and 7.7 mmol C m?3 yr?1 for the time period below the mixed layer. Oxygen differences between repeated ship sections are influenced by the Interdecadal Pacific Oscillation, by the phase of El Niño, by seasonal changes, and by eddies and hence have to be interpreted with care. At and south of the equator the decrease in oxygen in the upper ocean since 1976 is related to an increase in nitrate, phosphate, and in part in silicate.

Central & Eastern Africa, 1635 (Raster Image)

This layer is a georeferenced raster image of the historic paper map entitled: Aethiopia superior vel interior, vulgo Abissinorum sive Presbiteri Ioannis imperium. It was published by Guiljelmum et Johannem Blaeu in 1635. Scale [ca. 1:12,600,000]. Covers Central and Eastern Africa. Map in Latin.The image inside the map neatline is georeferenced to the surface of the earth and fit to the Africa Sinusoidal projected coordinate system. All map collar and inset information is also available as part of the raster image, including any inset maps, profiles, statistical tables, directories, text, illustrations, index maps, legends, or other information associated with the principal map. This map shows features such as drainage, cities and other human settlements, territorial boundaries, shoreline features, and more. Relief shown pictorially. Includes notes, illustrations of animals, and ornamental cartouche. This layer is part of a selection of digitally scanned and georeferenced historic maps from the Harvard Map Collection. These maps typically portray both natural and manmade features. The selection represents a range of originators, ground condition dates, scales, and map purposes.

Central & Eastern Africa, 1655 (Raster Image)

This layer is a georeferenced raster image of the historic paper map entitled: Haute Ethiopie, ou sont L'Empire des Abissins, La Nubie, et le Zanguebar : subdivisés en leurs principales parties, tirés de Sanut de Mercator &c. par le Sr. Sanson d'Abbeville. It was published by P. Mariette in 1655. Covers Central and Eastern Africa. Scale [ca. 1:12,000,000]. Map in French.The image inside the map neatline is georeferenced to the surface of the earth and fit to the Africa Sinusoidal projected coordinate system. All map collar and inset information is also available as part of the raster image, including any inset maps, profiles, statistical tables, directories, text, illustrations, index maps, legends, or other information associated with the principal map. This map shows features such as drainage, cities and other human settlements, territorial boundaries, shoreline features, and more. Relief shown pictorially.This layer is part of a selection of digitally scanned and georeferenced historic maps from the Harvard Map Collection. These maps typically portray both natural and manmade features. The selection represents a range of originators, ground condition dates, scales, and map purposes.

Central & Eastern Africa, 1887 (Raster Image)

This layer is a georeferenced raster image of the historic paper map entitled: Central Africa : on a scale of 1:10,000,000, By Dr. F. Boas. It was published by Hart & Von Arx in 1887. Scale 1:10,000,000 The image inside the map neatline is georeferenced to the surface of the earth and fit to the Africa Sinusoidal projected coordinate system. All map collar and inset information is also available as part of the raster image, including any inset maps, profiles, statistical tables, directories, text, illustrations, index maps, legends, or other information associated with the principal map. This map shows features such as drainage, cities and other human settlements, shoreline features, and more. Relief shown by shading. This layer is part of a selection of digitally scanned and georeferenced historic maps from the Harvard Map Collection. These maps typically portray both natural and manmade features. The selection represents a range of originators, ground condition dates, scales, and map purposes.

Post Roads, Central and Eastern Europe Regions, 1802 (Raster Image)

This layer is a georeferenced raster image of the historic paper map entitled: A new map of the post roads of Germany and Hungary with the adjacent kingdoms, republics and states : from the large map published at Vienna, with additions and improvements by J. Enouy, geogr. It was published by Laurie & Whittle, 53 Fleet Street in 1802. Scale [ca. 1:2,500,000]. Covers the Central and Eastern Europe regions. The image inside the map neatline is georeferenced to the surface of the earth and fit to the Europe Lambert Conformal Conic coordinate system. All map collar and inset information is also available as part of the raster image, including any inset maps, profiles, statistical tables, directories, text, illustrations, index maps, legends, or other information associated with the principal map. This map shows features such as drainage, cities and other human settlements, postal roads, territorial and administrative boundaries, shoreline features, and more. Relief shown pictorially.This layer is part of a selection of digitally scanned and georeferenced historic maps from the Harvard Map Collection. These maps typically portray both natural and manmade features. The selection represents a range of originators, ground condition dates, scales, and map purposes.

Northeast China & Eastern Siberia, Russia, 1750 (Raster Image)

This layer is a georeferenced raster image of the historic paper map entitled: Carte de la Tartarie Orientale : pour servir a l'Histoire générale des voyages, tirée des cartes levées par les PP. Jesuites. It was published by Pierre de Hondt in 1750. Scale [ca. 1:8,000,000]. Covers a portion of Northeast China and Eastern Siberia and Sakhalin, Russia. Map in French. The image inside the map neatline is georeferenced to the surface of the earth and fit to the Asia North Lambert Conformal Conic coordinate system. All map collar and inset information is also available as part of the raster image, including any inset maps, profiles, statistical tables, directories, text, illustrations, index maps, legends, or other information associated with the principal map. This map shows features such as drainage, cities and other human settlements, shoreline features, the Great Wall of China, and more. Relief shown pictorially. This layer is part of a selection of digitally scanned and georeferenced historic maps from the Harvard Map Collection. These maps typically portray both natural and manmade features. The selection represents a range of originators, ground condition dates, scales, and map purposes.

New England and Eastern New York Railroads, 1849 (Raster Image)

This layer is a georeferenced raster image of the historic paper map entitled: Railroad map of New England & eastern New York : compiled from the most authentic sources, by J.H. Goldthwait. It was published in 1849 by Redding & Co. and Clark, Austin, & Co. Scale [ca. 1:700,000]. Covers Massachusetts, Rhode Island, Connecticut, and portions of New York, Vermont, New Hampshire, and Maine. The image inside the map neatline is georeferenced to the surface of the earth and fit to the USA Contiguous Albers Equal Area Conic projection (Meters). All map collar and inset information is also available as part of the raster image, including any inset maps, profiles, statistical tables, directories, text, illustrations, or other information associated with the principal map. This map shows features such as railroads completed and in progress, drainage, state, county, and town boundaries, and more. Includes inset: Boston & vicinity showing the Grand Junction R.R. Scale [ca. 1:170,000]. This layer is part of a selection of digitally scanned and georeferenced historic maps of New England from the Harvard Map Collection. These maps typically portray both natural and manmade features. The selection represents a range of regions, originators, ground condition dates, scales, and purposes.