(Table T1) Mineralogy and geochemistry of ODP Hole 192-1183A and Hole 192-1186A sediments, Ontong Java Plateau

Boron, Ca, Na, and Gd concentrations and H intensity in sediments obtained during Ocean Drilling Program Leg 192 were determined by prompt gamma neutron activation analysis. The results show strong positive correlation between B content and H intensity in carbonate samples; chalk samples have higher B contents than limestone samples. Average B content is 9.1 ppm for the chalk and 5.2 ppm for the limestone. When chert blocks or clay minerals are present in the carbonate samples, B content increases (up to 91 ppm).

Oxygen and carbon isotope ratios for six planktonic foraminifer species from different water depth, Ontong-Java Plateau, Pacific (Table 2)

Stable isotope analyses and scanning electron micrographs have been carried out on six planktonic forminifera species, Pulleniatina obliquiloculata, Globorotalia tumida, Sphaeroidinella dehiscens, Globigerinoides ruber, Globigerinoides sacculifer and Globigerinoides quadrilobatus from eleven box-cores taken at increasing depths in the equatorial Ontong-Java Plateau (Pacific). This allows us to describe the way dissolution affects the microstructures of the tests of the different species and to quantify the changes of isotopic composition. We may conclude that: 1) dissolution effects on test morphology and stable isotope compositions are species dependent, species with a similar habitat showing a similar trend; 2) the shallow water, thin-shelled species are the first to disappear: scanning electron microscope (SEM) work shows alteration of outer layers. Deep water, thick-shelled species are present in all samples: SEM work shows breakdown and disparition of inner layers; 3) for all species there is a similar trend towards increasing delta18O values with increasing water depths and increasing dissolution. This effect may be as high as 0.6 ? per thousand meters for Globorotalia tumida; 4) below the lysocline, around 3500 m, it appears that 13C/12C ratios slightly increase towards equilibrium values for thick shelled species: G. tumida, P. obliquiloculata and S. dehiscens. 14C dates and isotope stratigraphy of two box-cores show that all samples are recent in age, and exclude upward mixing of glacial deposits as an important factor.

Stable oxygen isotope record of foraminifera from the Ontong Java Plateau

We provide a reconstruction of atmospheric CO2 from deep-sea sediments, for the past 625000 years (Milankovitch chron). Our database consists of a Milankovitch template of sea-level variation in combination with a unique data set for the deep-sea record for Ontong Java plateau in the western equatorial Pacific. We redate the Vostok ice-core data of Barnola et al. (1987, doi:10.1038/329408a0). To make the reconstructions we employ multiple regression between deep-sea data, on one hand, and ice-core CO2 data in Antarctica, on the other. The patterns of correlation suggest that the main factors controlling atmospheric CO2 can be described as a combination of sea-level state and sea-level change. For best results squared values of state and change are used. The square-of-sea-level rule agrees with the concept that shelf processes are important modulators of atmospheric CO2 (e.g., budgets of shelf organic carbon and shelf carbonate, nitrate reduction). The square-of-change rule implies that, on short timescales, any major disturbance of the system results in a temporary rise in atmospheric CO2.

(Table 1, 2) Foraminifera biometric data, and boron isotopic composition of Globigerinoides sacculifer of sediments from the Ontong-Java Plateau

Sediment samples from the Ontong-Java Plateau in the Pacific and the 90° east ridge in the Indian Ocean were used to investigate whether shell size and early diagenesis affect d11B of the symbiont-bearing planktonic foraminifer Globigerinoides sacculifer. In pristine shells from both study locations we found a systematic increase of d11B and Mg/Ca with shell size. Shells in the sieve size class 515-865 µm revealed d11B values +2.1 to +2.3 per mil higher than shells in the 250-380 µm class. This pattern is most likely due to differences in symbiont photosynthetic activity and its integrated effect on the pH of the foraminiferal microenvironment. We therefore suggest smaller individuals must live at approximately 50-100 m water depth where ambient light levels are lower. Using the empirical calibration curve for d11B in G. sacculifer, only shells larger than 425 µm reflect surface seawater pH. Partial dissolution of shells derived from deeper sediment cores was determined by shell weight analyses and investigation of the shell surface microstructure by scanning electron microscopy. The d11B in partially dissolved shells is up to 2 per mil lower relative to pristine shells of the same size class. In agreement with a relatively higher weight loss in smaller shells, samples from the Ontong-Java Plateau show a more pronounced dissolution effect than larger shells. On the basis of the primary size effect and potential postdepositional dissolution effects, we recommend the use of shells that are visually pristine and, in the case of G. sacculifer, larger than 500 ?m for paleoreconstructions.

A stereo-image analysis JAVA software with links to executable and source code

Scientists planning to use underwater stereoscopic image technologies are often faced with numerous problems during the methodological implementations: commercial equipment is too expensive; the setup or calibration is too complex; or the imaging processing (i.e. measuring objects in the stereo-images) is too complicated to be performed without a time-consuming phase of training and evaluation. The present paper addresses some of these problems and describes a workflow for stereoscopic measurements for marine biologists. It also provides instructions on how to assemble an underwater stereo-photographic system with two digital consumer cameras and gives step-by-step guidelines for setting up the hardware. The second part details a software procedure to correct stereo-image pairs for lens distortions, which is especially important when using cameras with non-calibrated optical units. The final part presents a guide to the process of measuring the lengths (or distances) of objects in stereoscopic image pairs. To reveal the applicability and the restrictions of the described systems and to test the effects of different types of camera (a compact camera and an SLR type), experiments were performed to determine the precision and accuracy of two generic stereo-imaging units: a diver-operated system based on two Olympus Mju 1030SW compact cameras and a cable-connected observatory system based on two Canon 1100D SLR cameras. In the simplest setup without any correction for lens distortion, the low-budget Olympus Mju 1030SW system achieved mean accuracy errors (percentage deviation of a measurement from the object's real size) between 10.2 and -7.6% (overall mean value: -0.6%), depending on the size, orientation and distance of the measured object from the camera. With the single lens reflex (SLR) system, very similar values between 10.1% and -3.4% (overall mean value: -1.2%) were observed. Correction of the lens distortion significantly improved the mean accuracy errors of either system. Even more, system precision (spread of the accuracy) improved significantly in both systems. Neither the use of a wide-angle converter nor multiple reassembly of the system had a significant negative effect on the results. The study shows that underwater stereophotography, independent of the system, has a high potential for robust and non-destructive in situ sampling and can be used without prior specialist training.

Asian green mussels (Perna viridis) transplanted between Jakarta Bay and Lada Bay, West Java, Indonesia (April 2012 - November 2013)

The Asian green mussel Perna viridis is tolerant to environmental stress, but its robustness varies between populations from habitats that differ in quality. So far, it is unclear whether local adaptations through stressinduced selection or phenotypic plasticity are responsible for these inter-population differences. We tested for the relevance of both mechanisms by comparing survival under hypoxia in mussels that were transplanted from an anthropogenically impacted (Jakarta Bay, Indonesia) to a natural habitat (Lada Bay, Indonesia) and vice versa. Mussels were retrieved 8 weeks after transplantation and exposed to hypoxia in the laboratory. Additional hypoxia tests were conducted with juvenile mussels collected directly from both sites. To elucidate possible relationships between habitat quality and mussel tolerance, we monitored concentrations of inorganic nutrients, temperature, dissolved oxygen, salinity, phytoplankton density and the mussels' body condition index (BCI) for 20 months before, during and after the experiments. Survival under hypoxia depended mainly on the quality of the habitat where the mussels lived before the hypoxia tests and only to a small degree on their site of origin. Furthermore, stress tolerance was only higher in Jakarta than in Lada Bay mussels when the BCIs were substantially higher, which in turn correlated with the phytoplankton densities. We explain why phenotypic plasticity and high BCIs are more likely the causes of populationspecific differences in hypoxia tolerance in P. viridis than stress-induced selection for robust genotypes. This is relevant to understanding the role of P. viridis as mariculture organism in eutrophic ecosystems and invasive species in the (sub)tropical world.

Calcite saturation and dissolution index of core-top sediment samples from the Ontong Java Plateau, Mid-Atlantic Ridge, the Caribbean and the Ceara Rise, the Indian Ocean, the Ninety-East Ridge and from the east of Madagascar

X-ray computed tomography (CT) provides an insight into the progression of dissolution in the tests of planktonic foraminifera. Four species of foraminifera (G. ruber [white], G. sacculifer, N. dutertrei and P. obliquiloculata) from Pacific, Atlantic and Indian Ocean core-top samples were examined by CT and SEM. Inner chamber walls began to dissolve at Delta[CO3**2-] values of 12-14 µmol/kg. Close to the calcite saturation horizon, dissolution and precipitation of calcite may occur simultaneously. Inner calcite of G. sacculifer, N. dutertrei and P. obliquiloculata from such sites appeared altered or replaced, whereas outer crust calcite was dense with no pores. Unlike the other species, there was no distinction between inner and outer calcite in CT scans of G. ruber. Empty calcite crusts of N. dutertrei and P. obliquiloculata were most resistant to dissolution and were present in samples where Delta[CO3**2-] ~ -20 µmol/kg. Five stages of preservation were identified in CT scans, and an empirical dissolution index, XDX, was established. XDX appears to be insensitive to initial test mass. Mass loss in response to dissolution was similar between species and sites at ~ 0.4 µg/µmol/kg. We provide calibrations to estimate Delta[CO3**2-] and initial test mass from XDX.

Hydrochemical properties of groundwater samples in Semarang area, Java Island, Indonesia (1992, 1993, 2003, 2006, and 2007)

In Semarang City, groundwater has been exploited as a natural resource since 1841. The groundwater exploited in deep wells is concentrated in confined aquifers. The previous hydrogeological model was developed in one unit of aquifer and refined then by using several hydrostratigraphical units following a regional hydrogeological map without any further analysis. At present, there is a lack of precise hydrogeological model which integrates geological and hydrogeological data, in particular for multiple aquifers in Semarang. Thus, the aim of this paper is to develop a hydrogeological model for the multiple aquifers in Semarang using an integrated data approach. Groundwater samples in the confined aquifers have been analyzed to define the water type and its lateral distribution. Two hydrogeological cross sections were then created based on several borelog data to define a hydrostratigraphical unit (HSU). The HSU result indicates the hydrogeological model of Semarang consists of two aquifers, three aquitards, and one aquiclude. Aquifer 1 is unconfined, while Aquifer 2 is confined. Aquifer 2 is classified into three groups (2a, 2b, and 2c) based on analyses of major ion content and hydrostratigraphical cross sections.

Planktonic foraminiferal flux and shell geochemistry data in the sediment trap time series JAM 1-3 off south Java

Results from sediment trap experiments conducted in the seasonal upwelling area off south Java from November 2000 until July 2003 revealed significant monsoon-, El Niño-Southern Oscillation-, and Indian Ocean Dipole-induced seasonal and interannual variations in flux and shell geochemistry of planktonic foraminifera. Surface net primary production rates together with total and species-specific planktonic foraminiferal flux rates were highest during the SE monsoon-induced coastal upwelling period from July to October, with three species Globigerina bulloides, Neogloboquadrina pachyderma dex., and Globigerinita glutinata contributing to 40% of the total foraminiferal flux. Shell stable oxygen isotopes (d18O) and Mg/Ca data of Globigerinoides ruber sensu stricto (s.s.), G. ruber sensu lato (s.l.), Neogloboquadrina dutertrei, Pulleniatina obliquiloculata, and Globorotalia menardii in the sediment trap time series recorded surface and subsurface conditions. We infer habitats of 0-30 m for G. ruber at the mixed layer depth, 60-80 m (60-90 m) for P. obliquiloculata (N. dutertrei) at the upper thermocline depth, and 90-110 m (100-150 m) for G. menardii in the 355-500 mm (>500 µm) size fraction corresponding to the (lower) thermocline depth in the study area. Shell Mg/Ca ratio of G. ruber (s.l. and s.s.) reveals an exponential relationship with temperature that agrees with published relationships particularly with the Anand et al. (2003) equations. Flux-weighted foraminiferal data in sediment trap are consistent with average values in surface sediment samples off SW Indonesia. This consistency confirms the excellent potential of these proxies for reconstructing past environmental conditions in this part of the ocean realm.

Concentrations and abundance ratios of long-chain alkenones and glycerol dialkyl glycerol tetraethers in sinking particles south of Java

In this study, we obtained concentrations and abundance ratios of long-chain alkenones and glycerol dialkyl glycerol tetraethers (GDGTs) in a one-year time-series of sinking particles collected with a sediment trap moored from December 2001 to November 2002 at 2200 m water depth south of Java in the eastern Indian Ocean. We investigate the seasonality of alkenone and GDGT fluxes as well as the potential habitat depth of the Thaumarchaeota producing the GDGTs entrained in sinking particles. The alkenone flux shows a pronounced seasonality and ranges from 1 µg m-**2 d**-1 to 35 µg m**-2 d**-1. The highest alkenone flux is observed in late September during the Southeast monsoon, coincident with high total organic carbon fluxes as well as high net primary productivity. Flux-weighted mean temperature for the high flux period using the alkenone-based sea-surface temperature (SST) index UK'37 is 26.7°C, which is similar to satellite-derived Southeast (SE) monsoon SST (26.4°C). The GDGT flux displays a weaker seasonality than that of the alkenones. It is elevated during the SE monsoon period compared to the Northwest (NW) monsoon and intermonsoon periods (approximately 2.5 times), which is probably related to seasonal variation of the abundance of Thaumarchaeota, or to enhanced export of GDGTs by aggregation with sinking phytoplankton detritus. Flux-weighted mean temperature inferred from the GDGT-based TEXH86 index is 26.2°C, which is 1.8 °C lower than mean annual (ma) SST but similar to SE monsoon SST. As the time series of TEXH86 temperature estimates, however, does not record a strong seasonal amplitude, we infer that TEXH86 reflects ma upper thermocline temperature at approximately 50 m water depth.