Comparison of fecal indicators with pathogenic bacteria and rotavirus in rural Bangladesh groundwater

Groundwater is routinely analyzed for fecal indicators but direct comparisons of fecal indicators to the presence of bacterial and viral pathogens are rare. This study was conducted in rural Bangladesh where the human population density is high, sanitation is poor, and groundwater pumped from shallow tubewells is often contaminated with fecal bacteria. Five indicator microorganisms (E. coli, total coliform, F+RNA coliphage, Bacteroides and human-associated Bacteroides (HuBacteroides)) and various environmental parameters were compared to the direct detection of waterborne pathogens by quantitative PCR in groundwater pumped from 50 tubewells. Rotavirus was detected in groundwater filtrate from the largest proportion of tubewells (40%), followed by Shigella (10%), Vibrio (10%), and pathogenic E. coli (8%). Spearman rank correlations and sensitivity-specificity calculations indicate that some, but not all, combinations of indicators and environmental parameters can predict the presence of pathogens. Culture-dependent fecal indicator bacteria measured on a single date did not predict bacterial pathogens, but annually averaged monthly measurements of culturable E. coli did improve prediction for total bacterial pathogens. F+RNA coliphage were neither correlated nor sufficiently sensitive towards rotavirus, but were predictive of bacterial pathogens. A qPCR-based E. coli assay was the best indicator for the bacterial pathogens, rotavirus and all pathogens combined. Since groundwater cannot be excluded as a significant source of diarrheal disease in Bangladesh and neighboring countries with similar characteristics, the need to develop more effective methods for screening tubewells with respect to microbial contamination is necessary.

Copepod abundance and fecal pellet production, sinking rate, and degradation in samples obtained during Leg 7 of Galathea 3 cruise 2006

The vertical distribution of copepods, fecal pellets and the fecal pellet production of copepods were measured at seven stations across the Southern Indian Ocean from productive areas off South Africa to oligotrophic waters off Northern Australia during October/November 2006. We quantified export of copepod fecal pellet from surface waters and how much was retained. Furthermore, the potential impact of Oncaea spp. and harpacticoid copepods on fecal pellets degradation was evaluated and found to be regional substantial. The highest copepod abundance and fecal pellet production was found in the western nutrient-rich stations close to South Africa and the lowest at the central oligotrophic stations. The in situ copepod fecal pellet production varied between 1 and 1,000 µg C/m**3/day. At all stations, the retention of fecal pellets in the upper 400 m of the water column was more than 99% and the vertical export of fecal pellets was low (<0.02 mg/m**2/day).

Sampling data, experimental data and fecal pellet characteristics of water pump samples in the strait of Øresund between Denmark and Sweden during 2004/2005

Copepod fecal pellets are often degraded at high rates within the upper part of the water column. However, the identity of the degraders and the processes governing the degradation remain unresolved. To identify the pellet degraders we collected water from Øresund (Denmark) approximately every second month from July 2004 to July 2005. These water samples were divided into 5 fractions (<0.2, <2, <20, <100, <200 µm) and total (unfractionated). We determined fecal pellet degradation rate and species composition of the plankton from triplicate incubations of each fraction and a known, added amount of fecal pellets. The total degradation rate of pellets by the natural plankton community of Øresund followed the phytoplankton biomass, with maximum degradation rate during the spring bloom (2.5 ± 0.49 d**-1) and minimum (0.52 ± 0.14 d**-1) during late winter. Total pellet removal rate ranged from 22% d**-1 (July 2005) to 87% d**-1 (May). Protozooplankton (dinoflagellates and ciliates) in the size range of 20 to 100 µm were the key degraders of the fecal pellets, contributing from 15 to 53% of the total degradation rate. Free-living in situ bacteria did not affect pellet degradation rate significantly; however, culture-originating bacteria introduced in association with the pellets contributed up to 59% of the total degradation rate. An effect of late-stage copepod nauplii (>200 µm) was indicated, but this was not a dominating degradation process. Mesozooplankton did not contribute significantly to the degradation. However, grazing of mesozooplankton on the pellet degraders impacts pellet degradation rate indirectly. In conclusion, protozooplankton seems to include the key organisms for the recycling of copepod fecal pellets in the water column, both through the microbial loop and, especially, by functioning as an effective 'protozoan filter' for fecal pellets.

Fecal pellet ingestion rate and feeding behavior of Oithona similis, Calanus helgolandicus and Pseudocalanus elongatus from the North Sea

Studies of fecal pellet flux show that a large percentage of pellets produced in the upper ocean is degraded within the surface waters. It is therefore important to investigate these degradation mechanisms to understand the role of fecal pellets in the oceanic carbon cycle. Degradation of pellets is mainly thought to be caused by coprophagy (ingestion of fecal pellets) by copepods, and especially by the ubiquitous copepods Oithona spp. We examined fecal pellet ingestion rate and feeding behavior of O. similis and 2 other dominant copepod species from the North Sea (Calanus helgolandicus and Pseudocalanus elongatus). All investigations were done with fecal pellets as the sole food source and with fecal pellets offered together with an alternative suitable food source. The ingestion of fecal pellets by all 3 copepod species was highest when offered together with an alternative food source. No feeding behavior was determined for O. similis due to the lack of pellet capture in those experiments. Fecal pellets offered together with an alternative food source increased the filtration activity by C. helgolandicus and P. elongatus and thereby the number of pellets caught in their feeding current. However, most pellets were rejected immediately after capture and were often fragmented during rejection. Actual ingestion of captured pellets was rare (<37% for C. helgolandicus and <24% for P. elongatus), and only small pellet fragments were ingested unintentionally along with alternative food. We therefore suggest coprorhexy (fragmentation of pellets) to be the main effect of copepods on the vertical flux of fecal pellets. Coprorhexy turns the pellets into smaller, slower-sinking particles that can then be degraded by other organisms such as bacteria and protozooplankton.

Granulometry of two sediment cores from Maxwell Bay, South Shetland Islands, West Antarctica

The climate evolution of the South Shetland Islands during the last c. 2000 years is inferred from the multiproxy analyses of a long (928 cm) sediment core retrieved from Maxwell Bay off King George Island. The vertical sediment flux at the core location is controlled by summer melting processes that cause sediment-laden meltwater plumes to form. These leave a characteristic signature in the sediments of NE Maxwell Bay. We use this signature to distinguish summer and winter-dominated periods. During the Medieval Warm Period, sediments are generally finer which indicates summer-type conditions. In contrast, during the Little Ice Age (LIA) sediments are generally coarser and are indicative of winter-dominated conditions. Comparison with Northern and Southern Hemisphere, Antarctic, and global temperature reconstructions reveals that the mean grain-size curve from Maxwell Bay closely resembles the curve of the global temperature reconstruction. We show that the medieval warming occurred earlier in the Southern than in the Northern Hemisphere, which might indicate that the warming was driven by processes occurring in the south. The beginning of the LIA appears to be almost synchronous in both hemispheres. The warming after the LIA closely resembles the Northern Hemisphere record which might indicate this phase of cooling was driven by processes occurring in the north. Although the recent rapid regional warming is clearly visible, the Maxwell Bay record does not show the dominance of summer-type sediments until the 1970s. Continued warming in this area will likely affect the marine ecosystem through meltwater induced turbidity of the surface waters as well as an extension of the vegetation period due to the predicted decrease of sea ice in this area.

Fecal pellets flux at DYFAMED sediment traps

Because zooplankton feces represent a potentially important transport pathway of surface-derived organic carbon in the ocean, we must understand the patterns of fecal pellet abundance and carbon mobilization over a variety of spatial and temporal scales. To assess depth-specific water column variations of fecal pellets on a seasonal scale, vertical fluxes of zooplankton fecal pellets were quantified and their contribution to mass and particulate carbon were computed during 1990 at 200, 500, 1000, and 2000 m depths in the open northwestern Mediterranean Sea as part of the French-JGOFS DYFAMED Program. Depth-averaged daily fecal pellet flux was temporally variable, ranging from 3.04 * 10**4 pellets m**2/d in May to a low of 6.98 * 10**2 pellets m**2/d in September. The peak flux accounted for 50% of the integrated annual flux of fecal pellets and 62% of pellet carbon during only two months in mid-spring (April and May). Highest numerical fluxes were encountered at 1000 m, suggesting fecal pellet generation well below the euphotic zone. However, there was a trend toward lower pellet carbon with increasing depth, suggesting bacterial degradation or in situ repackaging as pellets sink through the water column. At 500 m, both the lowest pellet numerical abundance and carbon flux were evident during the spring peak. Combined with data indicating that numerical and carbon fluxes are dominated at 500 m by a distinct type of pellet found uniquely at this depth, these trends suggest the presence of an undescribed mid-water macro-zooplankton or micro-nekton community. Fecal pellet carbon flux was highest at 200 m and varied with depth independently of overall particulate carbon, which was greatest at 500 m. Morphologically distinct types of pellets dominated the numerical and carbon fluxes. Small elliptical and spherical pellets accounted for 88% of the numerical flux, while larger cylindrical pellets, although relatively rare (<10%), accounted for almost 40% of the overall pellet carbon flux. Cylindrical pellets dominated the pellet carbon flux at all depths except 500 m, where a large subtype of elliptical pellet, found only at that depth, was responsible for the majority of pellet carbon flux. Overall during 1990, fecal pellets were responsible for a depth-integrated annual average flux of 1.03 mgC/m**2/d, representing 18% of the total carbon flux. The proportion of vertical carbon flux attributed to fecal pellets varied from 3 to 35%, with higher values occurring during periods when the water column was vertically mixed. Especially during these times, fecal pellets are a critical conveyor of carbon to the deep sea in this region.

Chlorophyll a and carbon fluxes, and characteristics of the water column during summer 2008 in the Beaufort Sea

Following the extreme low ice year of 2007, primary production and the sinking export of particulate and gel-like organic material, using short-term particle interceptor traps deployed at 100 m, were measured in the southeastern Beaufort Sea during summer 2008. The combined influence of early ice retreat and coastal upwelling contributed to exceptionally high primary production (500 ± 312 mg C/m**2/day, n = 7), dominated by large cells (>5 µm, 73% ± 15%, n = 7). However, except for one station located north of Cape Bathurst, the sinking export of particulate organic carbon (POC) was relatively low (range: 38-104 mg C/m**2/day, n = 12) compared to other productive Arctic shelves. Estimates indicate that 80% ± 20% of the primary production was cycled through large copepods or the microbial food web. Exopolymeric substances were abundant in the sinking material but did not appear to accelerate POC sinking export. The use of isotopic signatures (d13C, d15N) and carbon/nitrogen ratios to identify sources of the sinking material was successful only at two stations with a strong marine or terrestrial signature, indicating the limitations of this approach in hydrographically and biologically complex Arctic coastal waters such as in the Beaufort Sea. At these two stations influenced by either coastal upwelling or erosion, the composition and magnitude of particulate sinking fluxes were markedly different from other stations visited during the study. These observations underscore the fundamental role of mesoscale circulation patterns and hydrodynamic singularities on the export of particulate organic material on Arctic shelves.

Composition of ocean suspended matter

Compositions of different types of ocean suspended matter are under consideration.

Physical properties and AMS characteristics of ODP Site 185-1149 sediments

During Ocean Drilling Program Leg 185, we studied progressive changes of microfabrics of unconsolidated pelagic and hemipelagic sediments in Holes 1149A and 1149B in the northwest Pacific at 5818 m water depth. We paid particular attention to the early consolidation and diagenetic processes without tectonic deformation before the Pacific plate subduction at the Izu-Bonin Trench. Shape, size, and arrangement of pores were analyzed by scanning electron microscope (SEM) and were compared to anisotropy of magnetic susceptibility (AMS) data. The microfabric in Unit I is nondirectional fabric and is characterized by large peds of ~10-100 µm diameter, which are made up of clay platelets (mainly illite) and siliceous biogenic fragments. They are ovoid in shape and are mechanically packed by benthic animals. Porosity decreases from 0 to 60 meters below seafloor (mbsf) in Unit I (from 60% to 50%) in association with macropore size decreases. The microfabric of coarser grain particles other than clay in Unit II is characterized by horizontal preferred orientation because of depositional processes in Subunit IIA and burial compaction in Subunit IIB. On the other hand, small peds, which are probably made of fragments of fecal pellets and are composed of smectite and illite (3-30 µm diameter), are characterized by random orientation of clay platelets. The clay platelets in the small peds in Subunit IIA are in low-angle edge-to-face (EF) or face-to-face (FF) contact. These peds are electrostatically connected by long-chained clay platelets, which are interconnected by high-angle EF contact. Breaking of these long chains by overburden pressure diminishes the macropores, and the clay platelets in the peds become FF in contact, resulting in decreases in the volume of the micropores between clay platelets. Thus, porosity in Subunits IIA and IIB decreases remarkably downward. The AMS indicates random fabric and horizontal preferred orientation fabric in Units I and II, respectively. This result corresponds to that of SEM microfabric observations.In Subunit IIB, pressure solutions around radiolarian tests and clinoptilolite veins with normal displacement sense are seen distinctively below ~170 mbsf, probably in correspondence to the transition zone from opal-A to opal-CT.

Geochemistry and petrography of organic matter at DSDP Site 93-603

A series of 22 sediment samples of Cretaceous and Cenozoic age from DSDP Holes 603, 603B, and 603C at the continental rise off the northeastern American coast near Cape Hatteras was investigated by organic geochemical methods including organic carbon determination, Rock-Eval pyrolysis, gas chromatography and combined gas chromatography/mass spectrometry of extractable hydrocarbons, and kerogen microscopy. An abundance of terrigenous organic matter, including larger coal particles (almost exclusively consisting of huminite/vitrinite macerals), is the dominant characteristic of the organofacies types at Site 603. Marine organic matter, mostly structurally degraded and in the form of fecal pellets, was preserved in the Valanginian laminated marls and in Cenomanian black claystone turbidites. Long-chain nalkanes reflect the terrigenous imprint in the nonaromatic hydrocarbon fractions, whereas a second maximum at lower carbon numbers in most cases is caused by the presence of more mature recycled organic matter. Abundant isoprenoid and steroid hydrocarbons were found in sediments containing mainly marine organic matter, whereas hopanoids reflect the ubiquitous microbial activity. The organic matter in the Site 603 sediments, in so far as it is not recycled, is thermally immature.

Chlorophyll-a concentrations in phytoplankton fractions in waters of the Black Sea

Comparison of daily and diel variability of chlorophyll-a concentration at three long-term stations in meso- and eutrophic regions indicates that their values are similar. Daily patterns of deviation in chlorophyll concentration in small and large phytoplankton fraction from average daily values are presented. In conformity with a hypothesis of daily removal rhythms correlated with changes in diel light-dark periods, it was concluded that the mesotrophic region during the dark period is characterized by predominance of grazing on large phytoplankton in the upper layers and accumulation of detritus from cell fragments in the lower layer, while during the light period smaller phytoplankton predominantly grazed. The eutrophic region is characterized by predominance of grazing on small phytoplankton fraction in the upper layers during the dark period and settling out of fecal pellets containing chlorophyll into deeper depths; but during the light period, large phytoplankton predominantly grazed throughout the whole water layer.