Microbial communities in the deep subsurface

The diversity of microbial populations and microbial communities within the earth's subsurface is summarized in this review. Scientists are currently exploring the subsurface and addressing questions of microbial diversity, the interactions among microorganisms, and mechanisms for maintenance of subsurface microbial communities. Heterotrophic anaerobic microbial communities exist in relatively permeable sandstone or sandy sediments, located adjacent to organic-rich deposits. These microorganisms appear to be maintained by the consumption of organic compounds derived from adjacent deposits. Sources of organic material serving as electron donors include lignite-rich Eocene sediments beneath the Texas coastal plain, organic-rich Cretaceous shales from the southwestern US, as well as Cretaceous clays containing organic materials and fermentative bacteria from the Atlantic Coastal Plain. Additionally, highly diverse microbial communities occur in regions where a source of organic matter is not apparent but where igneous rock is present. Examples include the basalt-rich subsurface of the Columbia River valley and the granitic subsurface regions of Sweden and Canada. These subsurface microbial communities appear to be maintained by the action of lithotrophic bacteria growing on H₂ that is chemically generated within the subsurface. Other deep-dwelling microbial communities exist within the deep sediments of oceans. These systems often rely on anaerobic metabolism and sulfate reduction. Microbial colonization extends to the depths below which high temperatures limit the ability of microbes to survive. Energy sources for the organisms living in the oceanic subsurface may originate as oceanic sedimentary deposits. In this review, each of these microbial communities is discussed in detail with specific reference to their energy sources, their observed growth patterns, and their diverse composition. This information is critical to develop further understanding of subsurface geochemical processes and to develop new approaches to subsurface remediation. Résumé La diversité des populations et des communautés microbiennes dans le sol et le sous-sol est présentée dans cet article. Les chercheurs s'interrogent fréquemment sur la diversité microbienne du sous-sol, sur les interactions entre organismes et sur les mécanismes qui permettent le maintien des communautés microbiennes souterraines. Il existe des communautés microbiennes anérobies hétérotrophes dans des grès ou dans des sédiments sableux relativement perméables, à proximité de dépôts riches en matières organiques. Ces micro-organismes semblent se maintenir grâce à la consommation de composés organiques provenant des dépôts organiques voisins. Les sources de matériel organique jouant le rôle de donneur d'électrons sont constituées par des sédiments éocènes riches en lignite situés sous la plaine littorale du Texas, les schistes riches en matières organiques du Crétacé du sud-ouest des États-Unis, ainsi que les argiles contenant des matériaux organiques et des bactéries de fermentation de la plaine littorale atlantique. En outre, il existe des communautés fortement diversifiées dans des régions où aucune source de matière organique n'existe, mais où sont présentes des roches ignées. Le sous-sol riche en basalte de la vallée de la Columbia au Canada et les régions granitiques de Suède en sont des exemples. Ces communautés microbiennes souterraines semblent se maintenir par l'action de bactéries lithotrophes se développant grâce à l'hydrogène qui est produit par réactions chimiques dans le sous-sol. Il existe d'autres communautés microbiennes de profondeur dans les sédiments profonds des océans. Ces systèmes sont souvent associés à un métabolisme anérobie et à une réduction des sulfates. La colonisation microbienne s'étend jusqu'à des profondeurs où les températures élevées limitent leur capacité de survie. Les sources d'énergie pour ces organismes vivant dans les fonds des océans peuvent être les dépôts sédimentaires océaniques. Dans cette revue, chacune des communautés microbiennes est discutée en détail en se référant spécifiquement à leurs sources d'énergie, au schéma observé de leur développement et à leur composition diversifiée. Cette information est donnée de façon critique dans le but d'améliorer la compréhension des processus géochimiques intervenant dans le sous-sol et de développer de nouvelles approches pour la dépollution souterraine. Resumen En este artículo se resume la diversidad de las poblaciones y comunidades microbianas en el subsuelo. A partir de exploraciones realizadas en el subsuelo, los científicos se están cuestionando en la actualidad aspectos relativos a la diversidad microbiana, las interacciones entre los distintos microorganismos y los mecanismos para el mantenimiento de las comunidades de microbios. Se ha comprobado la presencia de comunidades microbianas anaerobias y heterótrofas en areniscas relativamente permeables y en sedimentos arenosos ubicados cerca de depósitos ricos en materia orgánica, de la cual se alimentan. Algunas fuentes de material orgánico, que actúan como donantes de electrones, son: sedimentos del Eoceno ricos en lignito, bajo la planicie costera de Texas; pizarras del Cretácico ricas en materia orgánica, al sudoeste del país; y arcillas cretácicas con materia orgánica y bacterias fermentativas, en la llanura Atlántica. También existen comunidades microbianas de gran diversidad en rocas ígneas, aunque la fuente de materia orgánica no es tan evidente. Algunos ejemplos son la subsuperficie del valle del Río Columbia, rico en basaltos, y las regiones graníticas de Suecia y Canadá. Estas comunidades microbianas subsuperficiales se mantienen por la acción de bacterias litotrópicas, que crecen en ambiente de H₂, generado en la subsuperficie. También existen comunidades microbianas a gran profundidad, como por ejemplo en los sedimentos oceánicos. Estos sistemas subsisten con un metabolismo anaerobio en un ambiente sulfato-reductor. La colonización microbiana se extiende hasta profundidades tales que las altas temperaturas limitan su supervivencia. Las fuentes de energía para estos organismos pueden ser los depósitos sedimentarios oceánicos. En este artículo se discute cada una de estas comunidades en detalle, en particular sus fuentes de energía, su esquema de crecimiento y la diversidad de su composición. Esta información es de gran interés para permitir un mayor entendimiento de los procesos geoquímicos en profundidad y para desarrollar nuevos métodos de rehabilitación.     

Body composition and compensatory growth in Nile tilapia Oreochromis niloticus under different feeding intervals

We investigated the growth and body composition of Nile tilapia under five different feeding regimes. A control group was fed to satiation twice daily for 185 days; four treatment groups were fed at intervals of 2, 3, 4 or 7 days(dietary ‘restricted' period, days 0–80) and then fed to satiation(‘refeeding' period, days 80–185). Compensatory growth in weight and length of the feed-restricted groups was observed during the refeeding period. However, the growth of none of the restricted groups caught up with that of the control group over the experimental period. Feed intake upon refeeding increased with the duration of deprivation. There were no significant differences in feed efficiency between the restricted and control groups during the refeeding stage, suggesting that hyperphagia was the mechanism responsible for the increased growth rates during this period. Tilapia preferentially used n-3 polyunsaturated fatty acids and nonessential amino acids during the restricted-feeding period. Higher production was achieved by higher feed consumption. We suggest that if attainment of market size in minimum time is required, fish should be consistently fed to satiation, while taking care to avoid the possible negative consequences of overfeeding.     

On the interannual variability of the Bonin high associated with the East Asian summer monsoon rain

In order to assess how the Bonin high affects interannual variability of the East Asian summer monsoon (EASM) around the Korean Peninsula, the pulsation of the Bonin high and its association with teleconnection patterns was examined. The major factor for the interannual intensity of the EASM is the center position of the Bonin high rather than its center pressure. Up to 12 harmonics over time can be used to reconstruct the Bonin high, demonstrating its intraseasonal variation. The interannual variability of the Bonin high correlates with the Tibet high. This correlation is dominant for the EASM onset time, though not its retreat. The primary teleconnection pattern, reliant up on the interannual variability of the Bonin high, is the Western Pacific oscillation (WPO) in April. In relation to long-term variability, the correlation between the WPO and the Bonin high appears to contribute to the retreat stage of the EASM, which has itself increased since the mid-1970s. Furthermore, the WPO in May and the Tibet correlation has marked the onset rather than the retreat of the EASM since the 1970s. This highly correlated pattern since the mid-1970s may be the result of El Niño.     

Seismic structural control using an electric servomotor active mass driver system

This study investigates an electric‐type active mass driver (AMD) system for structural vibration control. Composed primarily of an electric servomotor and a ball screw, the electrical AMD system is free from noise problems, oil leakage, and labor‐intensive maintenance that commonly are associated with hydraulic AMD systems. The desired stroke amplification of the mass and the power demand of the servomotor can be adjusted via the ball screw pitch, which in turn affects the effectiveness and efficiency of the system. Meanwhile, an instantaneous optimal direct output feedback control algorithm is adopted. Numerical simulation is performed using a five‐story steel frame as the object structure under the conditions of the 1940 El Centro earthquake. The AMD system proves to be effective and efficient within a certain range of the ball screw pitch. The reductions of the peak responses can reach as high as 70% if properly designed. Requiring only the velocity measurement of the top floor for on‐line feedback control, the proposed control algorithm is recommended for practical implementation. Copyright © 2004 John Wiley & Sons, Ltd.     

Nitrous oxide emissions from different land use patterns in a typical karst region, Southwest China

Fluxes of nitrous oxide (N2O) from different land use patterns (matured forest, secondary forest, grassland and cropland) in a subtropical karst region of Guizhou Province, Southwest China, were measured for one year with a closed static chamber technique and by gas chromatography. The results showed that soil under different land uses was a source of atmospheric N2O. The cropland was a source with relatively high N2O as compared to forest and grassland, but no significant differences were observed. N2O emissions from soils varied with land use change and fertilizer application. There were two peaks of N2O flux occurred following the combination of two obvious precipitation and fertilizer events in the cultivated land. Converting from the matured forest to secondary forest tended to increase annual emissions of N2O (from 1.40 to 1.65 kg N ha -1 a -1 ), while changing land use from secondary forest to scattered grassland tended to decrease annual emissions of N2O slightly (from 1.65 to 1.45 kg N ha -1 a -1 ). Our range of cumulative annual N2O emission across different land uses (1.40-1.91 kg N ha -1 a -1 ) in a karst region is in general agreement with previously published data in a non-karst region. However, in the maize field, N2O emission factor (EF) was 0.34% for fertilizer application, which is about 71.2% lower than the IPCC default value. It is suggested that current IPCC (Intergovernmental Panel on Climate Change) EF methodology could overestimate N2O emission from the karstic cropland. Anyway, the N2O emission from cropland in the karst region would contribute significantly to the global N2O budget, so reducing fertilization frequency during the crop growing season could lead to a decrease in N2O emission in the whole year.     

Extensional Late Paleozoic deformation on the western margin of Pangea, Patlanoaya area, Acatlán Complex, southern Mexico

New mapping in the northern part of the Paleozoic Acatlán Complex (Patlanoaya area) records several ductile shear zones and brittle faults with normal kinematics (previously thought to be thrusts). These movement zones separate a variety of units that pass structurally upwards from: (i) blueschist-eclogitic metamorphic rocks (Piaxtla Suite) and mylonitic megacrystic granites (Columpio del Diablo granite ≡ Ordovician granites elsewhere in the complex); (ii) a gently E-dipping, listric, normal shear zone with top to the east kinematic indicators that formed under upper greenschist to lower amphibolite conditions; (iii) the Middle–Late Ordovician Las Minas quartzite (upper greenschist facies psammites with minor interbedded pelites intruded by mafic dikes and a leucogranite dike from the Columpio del Diablo granite) unconformably overlain by the Otate meta-arenite (lower greenschist facies psammites and pelites): roughly temporal equivalents are the Middle–Late Ordovician Mal Paso and Ojo de Agua units (interbedded metasandstone and slate, and metapelite and mafic minor intrusions, respectively) — some of these units are intruded by the massive, 461 ± 2 Ma, Palo Liso megacrystic granite: decussate, contact metamorphic muscovite yielded a ⁴⁰Ar/³⁹Ar plateau age of 440 ± 4 Ma; (iv) a steeply-moderately, E-dipping normal fault; (v) latest Devonian–Middle Permian sedimentary rocks (Patlanoaya Group: here elevated from formation status). The upward decrease in metamorphic grade is paralleled by a decrease in the number of penetrative fabrics, which varies from (i) three in the Piaxtla Suite, through (ii) two in the Las Minas unit (E-trending sheath folds deformed by NE-trending, subhorizontal folds with top to the southeast asymmetry, both associated with a solution cleavage), (iii) one in the Otate, Mal Paso, and Ojo de Agua units (steeply SE-dipping, NE–SW plunging, open-close folds), to (iv) none in the Patlanoaya Group. ⁴⁰Ar/³⁹Ar analyses of muscovite from the earliest cleavage in the Las Minas unit yielded a plateau age of 347 ± 3 Ma and show low temperature ages of  260 Ma. Post-dating all of these structures and the Patlanoaya Group are NE-plunging, subvertical folds and kink bands. An E–W, vertical normal fault juxtaposes the low-grade rocks against the Anacahuite amphibolite that is cut by megacrystic granite sheets, both of which were deformed by two penetrative fabrics. Amphibole from this unit has yielded a ⁴⁰Ar/³⁹Ar plateau age of 299 ± 6 Ma, which records cooling through  490 °C and is probably related to a Permo-Carboniferous reheating event during exhumation. The extensional deformation is inferred to have started in the latest Devonian ( 360 Ma) during deposition of the basal Patlanoaya Group, lasting through the rapid exhumation of the Piaxtla Suite at  350–340 Ma synchronous with cleavage development in the Las Minas unit, deposition of the Patlanoaya Group with active fault-related exhumation suggested by Mississippian and Early Permian conglomerates ( 340 and 300 Ma, respectively), and continuing at least into the Middle Permian (≡ 260 Ma muscovite ages). The continuity of Mid-Continent Mississippian fauna from the USA to southern Mexico suggests that this extensional deformation occurred on the western margin of Pangea after closure of the Rheic Ocean.     

Ground-based FTIR Measurements with High Temporal Resolution

We outline how ground-based Fourier transform infrared (FTIR) measurements of stratospheric trace species, obtained with high temporal resolution, could be used to detect filaments of polar vortex air at mid-latitudes and therefore test high spatial resolution chemical transport models (CTMs). Vertical column abundances of HCl, ClONO2, HNO3, N2O and HF have been obtained from FTIR solar absorption measurements made throughout the day from Aberdeen, UK (57°N, 2°W) on several days during winter/spring 1993/94 and 1994/95. The short-timescale ( 2 hours) variability observed in the columns is attributed to real atmospheric variations and is often associated with the passage of high latitude air over Aberdeen. This is confirmed by 3D modelling studies which qualitatively reproduce and rationalise the observed changes in the column data on January 19 1994, January 20 1995 and February 26 1995. We describe the viewing geometry of ground-based FTIR measurements and we suggest a measurement strategy which should maximise the information retrieved on horizontal gradients in stratospheric trace species columns from FTIR measurements.     

Impact of climate warming on upper layer of the Bering Sea

The impact of climate warming on the upper layer of the Bering Sea is investigated by using a high-resolution coupled global climate model. The model is forced by increasing atmospheric CO₂ at a rate of 1% per year until CO₂ reaches double its initial value (after 70 years), after which it is held constant. In response to this forcing, the upper layer of the Bering Sea warms by about 2°C in the southeastern shelf and by a little more than 1°C in the western basin. The wintertime ventilation to the permanent thermocline weakens in the western Bering Sea. After CO₂ doubling, the southeastern shelf of the Bering Sea becomes almost ice-free in March, and the stratification of the upper layer strengthens in May and June. Changes of physical condition due to the climate warming would impact the pre-condition of spring bio-productivity in the southeastern shelf.     

Impacts of land use change and groundwater management on long-term nitrate-nitrogen and chloride trends in groundwater of Jeju Island,Korea

Impacts of land use changes and groundwater management actions on groundwater quality were evaluated at the island scale with spatiotemporal trends of NO₃-N and Cl concentrations in groundwater of Jeju Island, Korea. The temporal trends from 1993 to 2012 in the concentrations of NO₃-N and Cl from more than 3900 wells were estimated using the Mann–Kendall trend test and Sen’s slope analysis and compared with the land use change trend for the period 1995–2009. The results indicate that the upward trends in NO₃-N were associated with the expansion of agricultural lands, whereas Cl trends were considered to be affected by other factors in addition to the land use changes. In the mid-mountainous region, the deterioration in the groundwater quality by the both NO₃-N and Cl was expected due to the continuous expansion of agricultural lands. In the lowland area, the NO₃-N and Cl components showed different trends depending on the regions. In the eastern area, increasing trends in NO₃-N were observed due to the development of new agricultural areas, while the Cl concentration was observed to decrease as a result of the regulation on groundwater extraction to reduce seawater intrusion. Our study highlights that a comprehensive interpretation of trends in NO₃-N and Cl and land use changes for long-term periods can provide useful insights to prepare for suitable groundwater management plans in the whole island perspective.     

Distribution of chaetognaths (Aphragmophora: Sagittidae) in Korean waters

The distribution of chaetognaths was investigated at 10 stations in the southern part of Korean waters (line S), at six stations in the eastern part of Korean waters (line E) and at 8 stations in the western part of Korean waters (line W). Ten species were present at the stations at line S and Flaccisagitta enflata and Zonosagitta bedoti were dominant among these species. Mean densities at line S ranged from 7 inds.m^-3 to 27 inds.m^-3. Five chaetognath species were found at the stations at line E and Zonosagitta nagae and Parasagitta elegans were the most abundant. Mean densities ranged from 1 to 10 inds.m-3. Four chaetognath species were present at line W and Aidanosagitta crassa and chaetognath juveniles were dominant in this line. Mean densities ranged from 21 to 199 inds.m^-3. The density of chaetognaths was highest at line W while the diversity of chaetognaths was highest at line S. Individuals of chaetognaths were divided into two groups, a group of line E and a mixed group of lines W and E. This study suggests that F. enflata is a warm water species; Z. nagae is a mixed water species; P. elegans is a cold water species; and A. crassa is a less saline water species. The mtCOI of F. enflata, which was a dominant species in the sampling area, was analyzed. F. enflata that are present in waters around Korean were genetically divided into two groups, which may be influenced by various oceanic factors.