PanGet - downloads multiple data sets from PANGAEA

The software PanGet is a special tool for the download of multiple data sets from PANGAEA. It uses the PANGAEA data set ID which is unique and part of the DOI. In a first step a list of ID's of those data sets to be downloaded must be created. There are two choices to define this individual collection of sets. Based on the ID list, the tool will download the data sets. Failed downloads are written to the file *_failed.txt. The functionality of PanGet is also part of the program Pan2Applic (choose File > Download PANGAEA datasets...) and PanTool2 (choose Basic tools > Download PANGAEA datasets...).

Eolian deposition on the Ontong Java Plateau

The record of eolian deposition on the Ontong Java Plateau (OJP) since the Oligocene (approximately 33 Ma) has been investigated using dust grain size, dust flux, and dust mineralogy, with the goal of interpreting the paleoclimatology and paleometeorology of the western equatorial Pacific. Studies of modern dust dispersal in the Pacific have indicated that the equatorial regions receive contributions from both the Northern Hemisphere westerly winds and the equatorial easterlies; limited meteorological data suggest that low-altitude westerlies could also transport dust to OJP from proximal sources in the western Pacific. Previous studies have established the characteristics of the grain-size, flux, and mineralogy records of dust deposited in the North Pacific by the mid-latitude westerlies and in the eastern equatorial Pacific by the low-latitude easterlies since the Oligocene. By comparing the OJP records with the well-defined records of the mid-latitude westerlies and the low-latitude easterlies, the importance of multiple sources of dust to OJP can be recognized. OJP dust is composed of quartz, illite, kaolinite/chlorite, plagioclase feldspar, smectite, and heulandite. Mineral abundance profiles and principal components analysis (PCA) of the mineral abundance data have been used to identify assemblages of minerals that covary through all or part of the OJP record. Abundances of quartz, illite, and kaolinite/chlorite covary throughout the interval studied, defining a mineralogical assemblage supplied from Asia. Some plagioclase and smectite were also supplied as part of this assemblage during the late Miocene and Pliocene/Pleistocene, but other source areas have supplied significant amounts of plagioclase, smectite, and heulandite to OJP since the Oligocene. OJP dust is generally coarser than dust deposited by the Northern Hemisphere westerlies or the equatorial easterlies, and it accumulates more rapidly by 1-2 orders of magnitude. These relationships indicate the importance of the local sources on dust deposition at OJP. The grain-size and flux records of OJP dust do not exhibit most of the events observed in the corresponding records of the Northern Hemisphere westerlies or the equatorial easterlies, because these features are masked by the mixing of dust from several sources at OJP. The abundance record of the Asian dust assemblage at OJP, however, does contain most of the features characteristic of dust flux by means of the Northern Hemisphere westerlies, indicating that the paleoclimatic and paleometeorologic signal of a particular source area and wind system can be preserved in areas well beyond the region dominated by that source and those winds. Identifying such a signal requires "unmixing" the various dust assemblages, which can be accomplished by combining grain-size, flux, and mineralogic data.

Concentrations of major and minor constituents of samples from the lower end of the cores from the eastern Mediterranean Sea (Table 2)

The pore water chemistry of mud volcanoes from the Olimpi Mud Volcano Field and the Anaximander Mountains in the eastern Mediterranean Sea have been studied for three major purposes: (1) modes and velocities of fluid transport were derived to assess the role of (upward) advection, and bioirrigation for benthic fluxes. (2) Differences in the fluid chemistry at sites of Milano mud volcano (Olimpi area) were compiled in a map to illustrate the spatial heterogeneity reflecting differences in fluid origin and transport in discrete conduits in near proximity. (3) Formation water temperatures of seeping fluids were calculated from theoretical geothermometers to predict the depth of fluid origin and geochemical reactions in the deeper subsurface. No indications for downward advection as required for convection cells have been found. Instead, measured pore water profiles have been simulated successfully by accounting for upward advection and bioirrigation. Advective flow velocities are found to be generally moderate (3-50 cm/y) compared to other cold seep areas. Depth-integrated rates of bioirrigation are 1-2 orders of magnitude higher than advective flow velocities documenting the importance of bioirrigation for flux considerations in surface sediments. Calculated formation water temperatures from the Anaximander Mountains are in the range of 80 to 145 °C suggesting a fluid origin from a depth zone associated with the seismic decollement. It is proposed that at that depth clay mineral dehydration leads to the formation and advection of fluids reduced in salinity relative to sea water. This explains the ubiquitous pore water freshening observed in surface sediments of the Anaximander Mountain area. Multiple fluid sources and formation water temperatures of 55 to 80 °C were derived for expelled fluids of the Olimpi area.

Geochemistry of surface sediment cores (Table 4)

The mineralogy and geochemistry of a suite of nine manganese nodules from the South Atlantic have been determined. The Ce/La ratios of the nodules were investigated to see if they could be used as redox indicators to trace the oxygen content of the ambient water mass and the flow path of the Antarctic Bottom Water as has previously been successfully carried out in the Pacific Ocean. The Ce/La ratios of the nodules decrease in the sequence Lazarev Sea, Weddell Sea (10.4 and 9.7)>East Georgia Basin (6.5 and 7.1)>Argentine Basin (5.0), but then increase in the Brazil Basin (6.2) and Angola Basin (9.8 and 15.1). A further decrease was observed in the Cape Basin (7.6). An extremely high Ce/La ratio of 24.4 had already been determined for nodules sampled north of the Nares Abyssal Plain in the western North Atlantic. These data reflect the more complicated pattern of bottom water flow in the South Atlantic than in the South Pacific. The penetration of more oxygenated North Atlantic Deep Water into the South Atlantic accounts for the higher Ce/La ratios in the nodules from the Angola and Brazil basins. Based on this study, the flow path of the Antarctic Bottom Water could only be traced as far north as the Argentine Basin. The unique geochemistry of nodules from the central Angola Basin (high Mn/Fe and Ce/La ratios, high contents of Ni, Cu, Zn and Mo) appears to be a function of the nature of the overlying water mass and of the multiple diagenetic sources of metals to the nodules.

Seawater carbonate chemistry and calcification rate of eastern oyster Crassostrea virginica, 2011

Anthropogenic carbon dioxide (CO2) emissions reduce pH of marine waters due to the absorption of atmospheric CO2 and formation of carbonic acid. Estuarine waters are more susceptible to acidification because they are subject to multiple acid sources and are less buffered than marine waters. Consequently, estuarine shell forming species may experience acidification sooner than marine species although the tolerance of estuarine calcifiers to pH changes is poorly understood. We analyzed 23 years of Chesapeake Bay water quality monitoring data and found that daytime average pH significantly decreased across polyhaline waters although pH has not significantly changed across mesohaline waters. In some tributaries that once supported large oyster populations, pH is increasing. Current average conditions within some tributaries however correspond to values that we found in laboratory studies to reduce oyster biocalcification rates or resulted in net shell dissolution. Calcification rates of juvenile eastern oysters, Crassostrea virginica, were measured in laboratory studies in a three-way factorial design with 3 pH levels, two salinities, and two temperatures. Biocalcification declined significantly with a reduction of ~0.5 pH units and higher temperature and salinity mitigated the decrease in biocalcification.

(Table T4) Final depth vs. velocity and two-way traveltime data, ODP Site 178-1103

Site 1103 was one of a transect of three sites drilled across the Antarctic Peninsula continental shelf during Leg 178. The aim of drilling on the shelf was to determine the age of the sedimentary sequences and to ground truth previous interpretations of the depositional environment (i.e., topsets and foresets) of progradational seismostratigraphic sequences S1, S2, S3, and S4. The ultimate objective was to obtain a better understanding of the history of glacial advances and retreats in this west Antarctic margin. Drilling the topsets of the progradational wedge (0-247 m below seafloor [mbsf]), which consist of unsorted and unconsolidated materials of seismic Unit S1, was very unfavorable, resulting in very low (2.3%) core recovery. Recovery improved (34%) below 247 mbsf, corresponding to sediments of seismic Unit S3, which have a consolidated matrix. Logs were only obtained from the interval between 75 and 244 mbsf, and inconsistencies on the automatic analog picking of the signals received from the sonic log at the array and at the two other receivers prevented accurate shipboard time-depth conversions. This, in turn, limited the capacity for making seismic stratigraphic interpretations at this site and regionally. This study is an attempt to compile all available data sources, perform quality checks, and introduce nonstandard processing techniques for the logging data obtained to arrive at a reliable and continuous depth vs. velocity profile. We defined 13 data categories using differential traveltime information. Polynomial exclusion techniques with various orders and low-pass filtering reduced the noise of the initial data pool and produced a definite velocity depth profile that is synchronous with the resistivity logging data. A comparison of the velocity profile produced with various other logs of Site 1103 further validates the presented data. All major logging units are expressed within the new velocity data. A depth-migrated section with the new velocity data is presented together with the original time section and initial depth estimates published within the Leg 178 Initial Reports volume. The presented data confirms the location of the shelf unconformity at 222 ms two-way traveltime (TWT), or 243 mbsf, and allows its seismic identification as a strong negative and subsequent positive reflection.

ETOPO1 Global Relief Model converted to PanMap layer format

ETOPO1 is a 1 arc-minute global relief model of Earth's surface that integrates land topography and ocean bathymetry. It was built from numerous global and regional data sets. Data were converted to the PanMap layer format in 14 contour lines from 500 to 7000 meter in steps of 500 m. The link provides a zip-archive (1.1 MB) with *.lay files. The PanMap Mini-GIS software is published at doi:10.1594/PANGAEA.104840.

Sr-Nd isotopic analyses of sand-sized sediment from the San Francisco Bay coastal system

A diverse suite of geochemical tracers, including 87Sr/86Sr and 143Nd/144Nd isotope ratios, the rare earth elements (REEs), and select trace elements were used to determine sand-sized sediment provenance and transport pathways within the San Francisco Bay coastal system. This study complements a large interdisciplinary effort (Barnard et al., 2012) that seeks to better understand recent geomorphic change in a highly urbanized and dynamic estuarine-coastal setting. Sand-sized sediment provenance in this geologically complex system is important to estuarine resource managers and was assessed by examining the geographic distribution of this suite of geochemical tracers from the primary sources (fluvial and rock) throughout the bay, adjacent coast, and beaches. Due to their intrinsic geochemical nature, 143Nd/144Nd isotopic ratios provide the most resolved picture of where sediment in this system is likely sourced and how it moves through this estuarine system into the Pacific Ocean. For example, Nd isotopes confirm that the predominant source of sand-sized sediment to Suisun Bay, San Pablo Bay, and Central Bay is the Sierra Nevada Batholith via the Sacramento River, with lesser contributions from the Napa and San Joaquin Rivers. Isotopic ratios also reveal hot-spots of local sediment accumulation, such as the basalt and chert deposits around the Golden Gate Bridge and the high magnetite deposits of Ocean Beach. Sand-sized sediment that exits San Francisco Bay accumulates on the ebb-tidal delta and is in part conveyed southward by long-shore currents. Broadly, the geochemical tracers reveal a complex story of multiple sediment sources, dynamic intra-bay sediment mixing and reworking, and eventual dilution and transport by energetic marine processes. Combined geochemical results provide information on sediment movement into and through San Francisco Bay and further our understanding of how sustained anthropogenic activities which limit sediment inputs to the system (e.g., dike and dam construction) as well as those which directly remove sediments from within the Bay, such as aggregate mining and dredging, can have long-lasting effects.

Detection histories for eight species of Amazona parrots in Venezuela during the NeoMaps bird surveys in 2010

Documenting changes in distribution is necessary for understanding species' response to environmental changes, but data on species distributions are heterogeneous in accuracy and resolution. Combining different data sources and methodological approaches can fill gaps in knowledge about the dynamic processes driving changes in species-rich, but data-poor regions. We combined recent bird survey data from the Neotropical Biodiversity Mapping Initiative (NeoMaps) with historical distribution records to estimate potential changes in the distribution of eight species of Amazon parrots in Venezuela. Using environmental covariates and presence-only data from museum collections and the literature, we first used maximum likelihood to fit a species distribution model (SDM) estimating a historical maximum probability of occurrence for each species. We then used recent, NeoMaps survey data to build single-season occupancy models (OM) with the same environmental covariates, as well as with time- and effort-dependent detectability, resulting in estimates of the current probability of occurrence. We finally calculated the disagreement between predictions as a matrix of probability of change in the state of occurrence. Our results suggested negative changes for the only restricted, threatened species, Amazona barbadensis, which has been independently confirmed with field studies. Two of the three remaining widespread species that were detected, Amazona amazonica, Amazona ochrocephala, also had a high probability of negative changes in northern Venezuela, but results were not conclusive for Amazona farinosa. The four remaining species were undetected in recent field surveys; three of these were most probably absent from the survey locations (Amazona autumnalis, Amazona mercenaria and Amazona festiva), while a fourth (Amazona dufresniana) requires more intensive targeted sampling to estimate its current status. Our approach is unique in taking full advantage of available, but limited data, and in detecting a high probability of change even for rare and patchily-distributed species. However, it is presently limited to species meeting the strong assumptions required for maximum-likelihood estimation with presence-only data, including very high detectability and representative sampling of its historical distribution.

Pore-water chemistry of ODP Sites 124-767 and 124-768

The combination of multiple sediment sources and varying rates of sediment accumulation in the Celebes and Sulu seas have had significant impact on the processes of diagenesis, mineralization, and pore-fluid flow. Isotopic and mass-balance calculations help elucidate the various reactions taking place in these western Pacific basins, where ash alteration and basalt-seawater interactions are superimposed on the effects of sulfate oxidation of organic carbon and biogenic methane and of dolomitization of biogenic carbonates. Based on the shape of the calcium and magnesium depth profiles, two major reactive zones have been identified. The first is located near the zone of sulfate depletion and is characterized by carbonate recrystallization, dolomitization and ash alteration reactions at both Ocean Drilling Program Sites 767 and 768. The second reactive zone corresponds to the bottom of the sedimentary sequence and is characterized by alteration reactions in the basement (Site 767) and in the pyroclastic deposits beneath the sediment column (Site 768).

Planktic and benthic 14C reservoir ages, calibrated by a suite of 14C plateaus in the glacial-to-deglacial Suigetsu atmospheric 14C record

We here present a compilation of planktic and benthic 14C reservoir ages for the Last Glacial Maximum (LGM) and early deglacial from 11 key sites of global ocean circulation in the Atlantic and Indo-Pacific Ocean. The ages were obtained by 14C plateau tuning, a robust technique to derive both an absolute chronology for marine sediment records and a high-resolution record of changing reservoir/ventilation ages (Delta14C values) for surface and deep waters by comparing the suite of planktic 14C plateaus of a sediment record with that of the atmospheric 14C record (Sarnthein et al., 2007, doi:10.1029/173GM13). Results published thus far used as atmospheric 14C reference U/Th-dated corals, the Cariaco planktic record, and speleothems (Fairbanks et al., 2005, doi:10.1016/j.quascirev.2005.04.007; Hughen et al., 2006, doi:10.1016/j.quascirev.2006.03.014; Beck et al., 2001, doi:10.1023/A:1008175728826). We have now used the varve-counted atmospheric 14C record of Lake Suigetsu terrestrial macrofossils (Ramsey et al., 2012, doi:10.1126/science.1226660) to recalibrate the boundary ages and reservoir ages of the seven published records directly to an atmospheric 14C record. In addition, the results for four new cores and further planktic results for four published records are given. Main conclusions from the new compilation are: (1) The Suigetsu atmospheric 14C record on its varve counted time scale reflects all 14C plateaus, their internal structures and relative length previously identified, but implies a rise in the average 14C plateau age by 200-700 14C yr during LGM and early deglacial times. (2) Based on different 14C ages of coeval atmospheric and planktic 14C plateaus, marine surface water Delta14C may have temporarily dropped to an equivalent of ~0 yr in low-latitude lagoon waters, but reached >2500 14C yr both in stratified subpolar waters and in upwelled waters such as in the South China Sea. These values differ significantly from a widely assumed constant global planktic Delta14C value of 400 yr. (3) Suites of deglacial planktic Delta14C values are closely reproducible in 14C records measured at neighboring core sites. (4) Apparent deep-water 14C ventilation ages (equivalents of benthic Delta14C), deduced from the sum of planktic Delta14C and coeval benthic-planktic 14C differences, vary from 500 up to >5000 yr in LGM and deglacial ocean basins.