Direct PCR amplification of the 16S rRNA gene from single microbial cells isolated from an Antarctic iceberg using laser microdissection microscopy

Here, we describe a technique that allows the genetic linage analysis of 16S rRNA genes in bacteria observed under a microscope. The technique includes the isolation of microbial cells using a laser microdissection microscope, lysis of the cells, and amplification of the 16S rRNA genes in the isolated cells without interference by bacterial DNA contamination from the experimental environment or reagents. Using this technique, we successfully determined 15 16S rRNA gene sequences in cells isolated from an Antarctic iceberg. These sequences showed 94%–100% identity to their closest strains, which included bacteria that occur in aqueous, marine, and soil environments.     

Harmful microalgae blooms (HAB); problematic and conditions that induce them

HAB occurrence is becoming more frequent and problematic in marine recreational waters. However, the exploitation of the coastal area for recreational use is promoting the necessary conditions for the HAB increase. In terms of the harmful effects, we can consider two types of causative organism: the toxic producers and the high-biomass producers. Toxic events can be produced by a very low concentration of the causative organism. This characteristic implies a difficulty for the monitoring programs in relation to human health. It is important to point out in the context of human health and HAB events, that in some coastal regions (e.g. the Mediterranean basin) HABs are an emerging problem. In these regions, the local population and visitors may face a health risk that is difficult to measure. The monitoring of toxic species has mainly been associated -with shellfish farming. However, the risk of intoxication could become even greater in areas not subject to legislation of aquaculture activities.     

Analysis of the Tsunami of December 26, 2004, on the Kerala Coast of India—Part I: Amplitudes

The Indian Ocean tsunami of December 26, 2004, not only affected the Bay of Bengal coast of India but also part of the Arabian Sea coast of India. In particular, the tsunami caused loss of life and heavy damage on some parts of the Kerala coast in southwest India. The tsunami traveled west, south of Sri Lanka, and some of the tsunami energy was diffracted around Sri Lanka and the southern tip of India and moved northward into the Arabian Sea. However, tsunami, being a long gravity wave with a wave length of a few hundred kilometers, has to take a wide turn. In that process, it missed the very southern part of the Kerala coast and did not achieve large amplitudes there. However, further north, the tsunami achieved amplitudes of upto 5 m and caused loss of life and significant damage. Here we identify the physical oceanographic processes that were responsible for selective amplification of the tsunami in certain locations.     

Comparison of Near Coastal Significant Wave Height Measurements from SARAL/AltiKa with Wave Rider Buoys in the Indian Region

Significant Wave Height (SWH) measurement data from the AltiKa Radar Altimeter (RA) for the first 13 cycles of satellite coverage are compared with the SWH from Wave Rider Buoys (WRB) located at nine stations along the Indian coast to assess the performance of the altimeter over the coastal region. AltiKa SWH observations within a 30-minute interval and 50 km distance from WRBs are found to be over estimated by 6%, the Root Mean Square Error (RMSE) is 0.36 m, the Scatter Index (SI) is 26%, and the correlation coefficient (r) is 0.91. Relaxing the distance criteria by 50 km leads to increase in RMSE and deterioration of r to 0.89. There is a marked difference in the statistics on the comparison pairs pooled separately for the buoys near west and east coasts, with the latter showing RMSE error 26% more than the former. The method of Cressman weights adopted to correct for the errors arising out of the temporal and spatial differences in altimeter and buoy data comparison pairs resulted in reduction of RMSE by 5% and 25%, respectively, for the 30-minute and 50 km criteria and 4% and 56% for the 30-minute and 100 km criteria.     

A normal and superoutburst study of the eclipsing SU UMa star: DV Ursae Majoris

We report on time-resolved photometry carried out during the 1995 short outburst and the 1997 long outburst in the eclipsing dwarf nova DV UMa. The revised orbital period is 0.0858526172 (67) d. We detected gigantic superhumps with an amplitude of ∼0.6 mag in the mid-phase of the 1997 outburst, revealing the SU UMa nature of DV UMa. The superhump period is 0.0887 (4) d. The superhumps became less clear during the late phase of the superoutburst, and we found two possible periods of 0.0885 (15) and 0.0764 (15). During both outbursts, the eclipse was wide and shallow near the maximum, and then became narrower and deeper, which is qualitatively well explained by the current disc instability theory.     

Prediction of uniaxial compression PFC3D model micro‐properties using artificial neural networks

Artificial neural networks are used to predict the micro‐properties of particle flow code in three dimensions (PFC3D) models needed to reproduce macro‐properties of cylindrical rock samples in uniaxial compression tests. Data for the training and verification of the networks were obtained by running a large number of PFC3D models and observing the resulting macro‐properties. Four artificial networks based on two different architectures were used. The networks used different numbers of input parameters to predict the micro‐properties. Multi‐layer perceptron networks using Young's modulus, Poisson's ratio, uniaxial compressive strength, model particle resolution and the maximum‐to‐minimum particle ratio showed excellent performance in both training and verification. Adding one more variable—namely, minimum particle radius—showed degrading performance. Copyright © 2009 John Wiley & Sons, Ltd.     

Validation of MODIS Vegetation Continuous Fields for monitoring deforestation and forest degradation: two cases in Mexico

This study assesses whether MODIS Vegetation Continuous Fields percent tree cover (PTC) data can detect deforestation and forest degradation. To assess the usefulness of PTC for detecting deforestation, we used a data set consisting of eight forest and seven non-forest categories. To evaluate forest degradation, we used data from two temperate forest types in three conservation states: primary (dense), secondary (moderately degraded) and open (heavily degraded) forest. Our results show that PTC can differentiate temperate forest from non-forest categories (p = 0.05) and thus suggests PTC can adequately detect deforestation in temperate forests. In contrast, single-date PTC data does not appear to be adequate to detect forest degradation in temperate forests. As for tropical forest, PTC can partially discriminate between forest and non-forest categories.     

Building damage characteristics based on surveyed data and fragility curves of the 2011 Great East Japan tsunami

A large amount of buildings was damaged or destroyed by the 2011 Great East Japan tsunami. Numerous field surveys were conducted in order to collect the tsunami inundation extents and building damage data in the affected areas. Therefore, this event provides us with one of the most complete data set among tsunami events in history. In this study, fragility functions are derived using data provided by the Ministry of Land, Infrastructure and Transportation of Japan, with more than 250,000 structures surveyed. The set of data has details on damage level, structural material, number of stories per building and location (town). This information is crucial to the understanding of the causes of building damage, as differences in structural characteristics and building location can be taken into account in the damage probability analysis. Using least squares regression, different sets of fragility curves are derived to demonstrate the influence of structural material, number of stories and coastal topography on building damage levels. The results show a better resistant performance of reinforced concrete and steel buildings over wood or masonry buildings. Also, buildings taller than two stories were confirmed to be much stronger than the buildings of one or two stories. The damage characteristic due to the coastal topography based on limited number of data in town locations is also shortly discussed here. At the same tsunami inundation depth, buildings along the Sanriku ria coast were much greater damaged than buildings from the plain coast in Sendai. The difference in damage states can be explained by the faster flow velocities in the ria coast at the same inundation depth. These findings are key to support better future building damage assessments, land use management and disaster planning.     

Pathways and distances of fluid flow during low-grade metamorphism: evidence from pyrite deposits of the Cameros Basin, Spain

New geochemical and sulphur isotopic data are presented for a number of pyrite deposits from the Late Jurassic–Early Cretaceous Cameros Basin, Spain. The deposits were formed at, or close to, the peak of metamorphism and are always related to sandstone units in the mainly metapelite sequence. Iron remained immobile and conservative, pyrite iron being derived by sulphidation of chlorite in the host metapelites. Reduced sulphur, however, was supplied from two external sources: thermochemical reduction of sulphate and release of S during metamorphism of sedimentary sulphides. These sources provided isotopically heavy and light S, respectively, with variation in pyrite isotopic composition between different deposits resulting from differences in their relative importance at each site. During metamorphism, the sandstone units acted as aquifers, carrying the sulphidic pore waters to locations where permeability provided by syn-depositional fractures on a scale of 0.5–5  m allowed its interaction with the metapelites. Transport distances for sulphide during metamorphism were of the order of hundreds of metres.