Prokaryotic growth and presence of metabolic products and contamination tracers in rocks samples from ODP Leg 187 sites

The microbial population in samples of basalt drilled from the north of the Australian Antarctic Discordance (AAD) during Ocean Drilling Program Leg 187 were studied using deoxyribonucleic acid (DNA)-based methods and culturing techniques. The results showed the presence of a microbial population characteristic for the basalt environment. DNA sequence analysis revealed that microbes grouping within the Actinobacteria, green nonsulfur bacteria, the Cytophaga/Flavobacterium/Bacteroides (CFB) group, the Bacillus/Clostridium group, and the beta and gamma subclasses of the Proteobacteria were present in the basalt samples collected. The most dominant phylogenetic group, both in terms of the number of sequences retrieved and the intensities of the DNA bands obtained with the denaturing gradient gel electrophoresis analysis, was the gamma Proteobacteria. Enrichment cultures showed phylogenetic affiliation with the Actinobacteria, the CFB group, the Bacillus/Clostridium group, and the alpha, beta, gamma, and epsilon subclasses of the Proteobacteria. Comparison of native and enriched samples showed that few of the microbes found in native basalt samples grew in the enrichment cultures. Only seven clusters, two clusters within each of the CFB and Bacillus/Clostridium groups and five clusters within the gamma Proteobacteria, contained sequences from both native and enriched basalt samples with significant similarity. Results from cultivation experiments showed the presence of the physiological groups of iron reducers and methane producers. The presence of the iron/manganese-reducing bacterium Shewanella was confirmed with DNA analysis. The results indicate that iron reducers and lithotrophic methanogenic Archaea are indigenous to the ocean crust basalt and that the methanogenic Archaea may be important primary producers in this basaltic environment.

Diatom abundance in sediments from ODP Leg 167 sites

The Pliocene and Pleistocene periods are known for the onset and consequent amplification of glacial-interglacial cycles. The California margin, situated in the mid-latitudes of the northern Pacific Ocean, is expected to be one of the most interesting regions for Pliocene to Pleistocene paleoceanography because this area occupies a unique position in the ocean-atmosphere system over the region. In this study, we investigated paleoceanographic history, using fossil diatoms, since the Brunhes/Matuyama (B/M) paleomagnetic boundary in which glacial and interglacial periods began to alternate in 100-yr cycles. In Hole 1018A, to a depth corresponding to the beginning of Northern Hemisphere glaciation (late Pliocene), we investigated the responses of the ocean-atmosphere system to stepwise cooling in the California margin. Although the work is still continuing, this data report shows that fossil diatoms of Pliocene and Pleistocene sediments significantly changed both in quality and quantity and implies a possible relationship to global climatic changes.

Calcareous nannoplankton of DSDP Leg 43 holes

During Leg 43, six holes (Sites 382-387) were drilled in the western part of the North Atlantic Ocean; locations of sites are shown in Figure 1. Lower Cretaceous to Quaternary calcareous nannofossils were found in 127 of 189 cores recovered during the leg. The ages and zonal assignments of these fossiliferous cores based upon light-microscopical observation are given in Table 1. An almost continuous succession of nannofossil assemblages of the lower Maestrichtian to upper Paleocene is present at Site 384. A detailed investigation was conducted on samples at this site, and the evolution of approximately 50 species is documented through almost the entire Paleocene epoch.

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.