Thermoplasmatales and Methanogens: Potential Association with the Crenarchaeol Production in Chinese Soils

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Fuyan Li

2017-06-01

Full Text Available Crenarchaeol is a unique isoprenoid glycerol dibiphytanyl glycerol tetraether (iGDGT lipid, which is only identified in cultures of ammonia-oxidizing Thaumarchaeota. However, the taxonomic origins of crenarchaeol have been debated recently. The archaeal populations, other than Thaumarchaeota, may have associations with the production of crenarchaeol in ecosystems characterized by non-thaumarchaeotal microorganisms. To this end, we investigated 47 surface soils from upland and wetland soils and rice fields and another three surface sediments from river banks. The goal was to examine the archaeal community compositions in comparison with patterns of iGDGTs in four fractional forms (intact polar-, core-, monoglycosidic- and diglycosidic-lipid fractions along gradients of environments. The DistLM analysis identified that Group I.1b Thaumarchaeota were mainly responsible for changes in crenarchaeol in the overall soil samples; however, Thermoplasmatales may also contribute to it. This is further supported by the comparison of crenarchaeol between samples characterized by methanogens, Thermoplasmatales or Group I.1b Thaumarchaeota, which suggests that the former two may contribute to the crenarchaeol pool. Last, when samples containing enhanced abundance of Thermoplasmatales and methanogens were considered, crenarchaeol was observed to correlate positively with Thermoplasmatales and archaeol, respectively. Collectively, our data suggest that the crenarchaeol production is mainly derived from Thaumarchaeota and partly associated with uncultured representatives of Thermoplasmatales and archaeol-producing methanogens in soil environments that may be in favor of their growth. Our finding supports the notion that Thaumarchaeota may not be the sole source of crenarchaeol in the natural environment, which may have implication for the evolution of lipid synthesis among different types of archaea.

Airborne exposure and soil levels associated with lead abatement of a steel tank.

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Lange, John H

2002-02-01

This study reports on airborne exposure levels and soil concentrations of lead in regard to abatement of a steel structure (water tank). The tank was de-leaded by abrasive sand blasting. The ball of the tank had a lead surface level that exceeded the Environmental Protection Agency (EPA) definition of lead-based paint (LBP) (0.5% lead), but paint on stem and base was below this criterion. Personal and area airborne samples were collected during different activities of lead abatement of the tank. Summary results suggest during abrasive blasting of ball and stem/base personal exposure levels, as reported with arithmetic and geometric means, exceed the Occupational Safety and Health Administration (OSHA) permissible exposure limit (50 microg/m3). Highest personal exposure (occupational exposure) was associated with blasting of ball. Distribution of airborne and soil samples suggest non-normality and is best represented by a logarithmic form. Geometric standard deviations for air and soil lead support a non-normal distribution. Outlying values were found for personal and area air samples. Exposure levels associated with blasting stem/base section of tank support OSHA's policy requiring air monitoring of work at levels below the criterion established by EPA in identifying LBP. Area samples were statistically lower than personal samples associated with blasting ball and stem/base of tank. Exposure data suggest that workers performing abatement on steel structures have elevated lead exposure from surface lead. Respirator protection requirements are discussed. Soil lead concentration was suggested to decrease as distance increased from tank. Soil lead is suggested to be a result of deposition from LBP on tank surface. Minimal efforts were required to reduce average lead soil levels below EPA's upper acceptable criterion (1200 ppm Pb).

Geophysical surveys combined with laboratory soil column experiments to identify and explore risk areas for soil and water pollution in feedlots

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Espejo-Pérez, Antonio Jesus; Sainato, Claudia Mabel; Jairo Márquez-Molina, John; Giráldez, Juan Vicente; Vanderlinden, Karl

2014-05-01

Changes of land use without a correct planning may produce its deterioration with their social, economical and environmental irreversible consequences over short to medium time range. In Argentina, the expansion of soybean fields induced a reduction of the area of pastures dedicated to stockbreeding. As cattle activity is being progressively concentrated on small pens, at feedlots farms, problems of soil and water pollution, mainly by nitrate, have been detected. The characterization of the spatial and temporal variability of soil water content is very important because the mostly advective transport of solutes. To avoid intensive soil samplings, very expensive, one has to recur to geophysical exploration methods. The objective of this work was to identify risk areas within a feedlot of the NW zone of Buenos Aires Province, in Argentina through geophysical methods. The surveys were carried out with an electromagnetic induction profiler EMI-400 (GSSI) and a Time domain Reflectometry (TDR) survey of depth 0-0.10 m with soil sampling and measurement of moisture content with gravimetric method (0-1.0 m). Several trenches were dug inside the pens and also at a test site, where texture, apparent density, saturated hydraulic conductivity (Ks), electrical conductivity of the saturation paste extract and organic matter content (OM) were measured. The water retention curves for these soils were also determined. At one of the pens undisturbed soil columns were extracted at 3 locations. Laboratory analysis for 0-1.0 m indicated that soil texture was classified as sandy loam, average organic matter content (OM) was greater than 2.3% with low values of apparent density in the first 10 cm. The range of spatial dependence of data suggested that the number of soil samples could be reduced. Soil apparent electrical conductivity (ECa) and soil moisture were well correlated and indicated a clear spatial pattern in the corrals. TDR performance was acceptable to identify the spatial

New land disposal restrictions on contaminated soil and debris, and newly identified toxicity characteristic organics

International Nuclear Information System (INIS)

Fortune, William B.; Schumann, Jean C.; Fallon, William E.; Badden, Janet W.; Smith, Edward H.

1992-01-01

The applicability of the Resource Conservation and Recovery Act (RCRA) Land Disposal Restrictions (LDR) program to radioactive mixed wastes (RMW) has been clarified through U.S. Environmental Protection Agency (EPA) and U.S. Department of Energy (DOE) rulemakings and notices. However, a number of waste management concerns involving RMW and RMW-contaminated soil and debris continue to exist with respect to achieving compliance with LDR provisions and treatment standards. Consequently, DOE has become increasingly proactive in its participation in the LDR rulemaking process and in the identification of LDR compliance issues associated with its RMW inventories. Both data and recommendations from across the DOE complex were collected and transmitted to EPA in response to proposed requirements that would implement LDR for contaminated soil and debris, and certain newly identified toxicity characteristic (TC) organics. Much of this information focused on concerns related to the application of proposed regulatory approaches to RMW streams. Highlights from the information included in these DOE responses are presented. (author)

Fauna-associated changes in chemical and biochemical properties of soil.

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Tripathi, G; Sharma, B M

2006-12-01

To study the impacts of abundance of woodlice, termites, and mites on some functional aspects of soil in order to elucidate the specific role of soil fauna in improving soil fertility in desert. Fauna-rich sites were selected as experimental sites and adjacent areas were taken as control. Soil samples were collected from both sites. Soil respiration was measured at both sites. The soil samples were sent to laboratory, their chemical and biochemical properties were analyzed. Woodlice showed 25% decrease in organic carbon and organic matter as compared to control site. Whereas termites and mites showed 58% and 16% decrease in organic carbon and organic matter. In contrast, available nitrogen (nitrate and ammonical both) and phosphorus exhibited 2-fold and 1.2-fold increase, respectively. Soil respiration and dehydrogenase activity at the sites rich in woodlice, termites and mites produced 2.5-, 3.5- and 2-fold increases, respectively as compared to their control values. Fauna-associated increase in these biological parameters clearly reflected fauna-induced microbial activity in soil. Maximum decrease in organic carbon and increase in nitrate-nitrogen and ammonical-nitrogen, available phosphorus, soil respiration and dehydrogenase activity were produced by termites and minimum by mites reflecting termite as an efficient soil improver in desert environment. The soil fauna-associated changes in chemical (organic carbon, nitrate-nitrogen, ammonical-nitrogen, phosphorus) and biochemical (soil respiration, dehydrogenase activity) properties of soil improve soil health and help in conservation of desert pedoecosystem.

Using 50 years of soil radiocarbon data to identify optimal approaches for estimating soil carbon residence times

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Baisden, W. T.; Canessa, S.

2013-01-01

In 1959, Athol Rafter began a substantial programme of systematically monitoring the flow of 14C produced by atmospheric thermonuclear tests through organic matter in New Zealand soils under stable land use. A database of ∼500 soil radiocarbon measurements spanning 50 years has now been compiled, and is used here to identify optimal approaches for soil C-cycle studies. Our results confirm the potential of 14C to determine residence times, by estimating the amount of ‘bomb 14C’ incorporated. High-resolution time series confirm this approach is appropriate, and emphasise that residence times can be calculated routinely with two or more time points as little as 10 years apart. This approach is generally robust to the key assumptions that can create large errors when single time-point 14C measurements are modelled. The three most critical assumptions relate to: (1) the distribution of turnover times, and particularly the proportion of old C (‘passive fraction’), (2) the lag time between photosynthesis and C entering the modelled pool, (3) changes in the rates of C input. When carrying out approaches using robust assumptions on time-series samples, multiple soil layers can be aggregated using a mixing equation. Where good archived samples are available, AMS measurements can develop useful understanding for calibrating models of the soil C cycle at regional to continental scales with sample numbers on the order of hundreds rather than thousands. Sample preparation laboratories and AMS facilities can play an important role in coordinating the efficient delivery of robust calculated residence times for soil carbon.

Using 50 years of soil radiocarbon data to identify optimal approaches for estimating soil carbon residence times

International Nuclear Information System (INIS)

Baisden, W.T.; Canessa, S.

2013-01-01

In 1959, Athol Rafter began a substantial programme of systematically monitoring the flow of 14 C produced by atmospheric thermonuclear tests through organic matter in New Zealand soils under stable land use. A database of ∼500 soil radiocarbon measurements spanning 50 years has now been compiled, and is used here to identify optimal approaches for soil C-cycle studies. Our results confirm the potential of 14 C to determine residence times, by estimating the amount of ‘bomb 14 C’ incorporated. High-resolution time series confirm this approach is appropriate, and emphasise that residence times can be calculated routinely with two or more time points as little as 10 years apart. This approach is generally robust to the key assumptions that can create large errors when single time-point 14 C measurements are modelled. The three most critical assumptions relate to: (1) the distribution of turnover times, and particularly the proportion of old C (‘passive fraction’), (2) the lag time between photosynthesis and C entering the modelled pool, (3) changes in the rates of C input. When carrying out approaches using robust assumptions on time-series samples, multiple soil layers can be aggregated using a mixing equation. Where good archived samples are available, AMS measurements can develop useful understanding for calibrating models of the soil C cycle at regional to continental scales with sample numbers on the order of hundreds rather than thousands. Sample preparation laboratories and AMS facilities can play an important role in coordinating the efficient delivery of robust calculated residence times for soil carbon.

Phytoremediation of petroleum-polluted soils: application of Polygonum aviculare and its root-associated (penetrated) fungal strains for bioremediation of petroleum-polluted soils.

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Mohsenzadeh, Fariba; Nasseri, Simin; Mesdaghinia, Alireza; Nabizadeh, Ramin; Zafari, Doustmorad; Khodakaramian, Gholam; Chehregani, Abdolkarim

2010-05-01

Petroleum-polluted soils are a common disaster in many countries. Bioremediation of oil contamination in soils is based on the stimulation of petroleum-hydrocarbon-degrading fungal and microbial communities. A field study was conducted in a petroleum-contaminated site to find petroleum-resistant plants and their root-associated fungal strains for use in bioremediation of petroleum-polluted soils. Results and observations showed that the amounts of petroleum pollution in nonvegetated soils were several times higher than in vegetated soils. Plants collected from petroleum-polluted areas were identified using morphological characters. Results indicated that seven plant species were growing on the contaminated sites: Alhaji cameleron L. (Fabaceae), Amaranthus retroflexus L. var. retroflexus (Amaranthaceae), Convolvulus arvensis L. (Convolvulaceae), Chrozophora hierosolymitana Spreg. (Euphorbiaceae), Noea mucronata L. (Boraginaceae), Poa sp. (Poaceae), and Polygonum aviculare L. (Polygonaceae). The root-associated fungi of each plant were determined and results showed the presence of 11 species that associated with and also penetrated the roots of plants growing in the polluted areas. Altenaria sp. was common to all of the plants and the others had species-specific distribution within the plants. The largest numbers of fungal species (six) were determined for P. aviculare and Poa sp. in polluted areas. However, the variation of fungal strains in the plants collected from petroleum-polluted areas was greater than for nonpolluted ones. Culture of fungi in oil-contaminated media showed that all the studied fungi were resistant to low petroleum pollution (1% v/v) and a few species, especially Fusarium species, showed resistance to higher petroleum pollution (10% v/v) and may be suitable for bioremediation in highly polluted areas. Bioremediation tests with P. aviculare, with and without fungal strains, showed that application of both the plant and its root-associated fungal

ERTS-1 MSS imagery: Its use in delineating soil associations and as a base map for publishing soils information. [South Dakota

Science.gov (United States)

Westin, F. C.

1974-01-01

ERTS 1 imagery is a useful tool in the identification and refinement of soil association areas and an excellent base map upon which soil association information can be published. Prints of bands 5 and 7 were found to be most useful to help delineate major soil and vegetation areas. After delineating major soil areas, over 4800 land sale prices covering a period of 1967-72 were located in the soil areas and averaged. The soil association then were described as soil association value areas and published on a 1:1,000,000 scale ERTS mosaic of South Dakota constructed using negative prints of band 7. The map is intended for use by state and county revenue officers, by individual buyers and sellers of land and lending institutions, and as a reference map by those planning road routes and cable lines and pipelines.

Variation in soil aluminium tolerance genes is associated with local adaptation to soils at the Park Grass Experiment.

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Gould, Billie; McCouch, Susan; Geber, Monica

2014-12-01

Studies of the wild grass Anthoxanthum odoratum at the long-term Park Grass Experiment (PGE, Harpenden, UK) document a well-known example of rapid plant evolution in response to environmental change. Repeated fertilizer applications have acidified the soil in some experimental plots over the past 150+ years, and Anthoxanthum subpopulations have quickly become locally adapted. Early reciprocal transplants showed subpopulation differentiation specifically in response to soil aluminium (Al) toxicity across the experiment, even at small (30 m) spatial scales. Almost 40 years after its original measurement, we reassessed the degree of local adaptation to soil Al at the PGE using updated phenotyping methods and identified genes with variation linked to the tolerance trait. Root growth assays show that plants are locally adapted to soil Al at both the seedling and adult growth stages, but to a smaller extent than previously inferred. Among a large suite of candidate loci that were previously shown to have Al-sensitive expression differences between sensitive and tolerant plants, three loci contained SNPs that are associated with both Al tolerance and soil acidity: an Al-sensitive malate transporter (ALMT), a tonoplast intrinsic protein (TIP) and the putative homolog of the rice cell-wall modification gene STAR1. Natural genetic variation at these loci is likely to have contributed to the recent rapid evolution at PGE. Continued study of Al tolerance variants in Anthoxanthum will allow us to test hypotheses about the nature and source of genetic variation that enables some species to adapt to soil acidification and other types of rapid environmental change. © 2014 John Wiley & Sons Ltd.

Using 50 years of soil radiocarbon data to identify optimal approaches for estimating soil carbon residence times

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Baisden, W.T., E-mail: t.baisden@gns.cri.nz [National Isotope Centre, GNS Science, P.O. Box 31312, Lower Hutt (New Zealand); Canessa, S. [National Isotope Centre, GNS Science, P.O. Box 31312, Lower Hutt (New Zealand)

2013-01-15

In 1959, Athol Rafter began a substantial programme of systematically monitoring the flow of {sup 14}C produced by atmospheric thermonuclear tests through organic matter in New Zealand soils under stable land use. A database of {approx}500 soil radiocarbon measurements spanning 50 years has now been compiled, and is used here to identify optimal approaches for soil C-cycle studies. Our results confirm the potential of {sup 14}C to determine residence times, by estimating the amount of 'bomb {sup 14}C' incorporated. High-resolution time series confirm this approach is appropriate, and emphasise that residence times can be calculated routinely with two or more time points as little as 10 years apart. This approach is generally robust to the key assumptions that can create large errors when single time-point {sup 14}C measurements are modelled. The three most critical assumptions relate to: (1) the distribution of turnover times, and particularly the proportion of old C ('passive fraction'), (2) the lag time between photosynthesis and C entering the modelled pool, (3) changes in the rates of C input. When carrying out approaches using robust assumptions on time-series samples, multiple soil layers can be aggregated using a mixing equation. Where good archived samples are available, AMS measurements can develop useful understanding for calibrating models of the soil C cycle at regional to continental scales with sample numbers on the order of hundreds rather than thousands. Sample preparation laboratories and AMS facilities can play an important role in coordinating the efficient delivery of robust calculated residence times for soil carbon.

Root-driven Weathering Impacts on Mineral-Organic Associations in Deep Soil

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Keiluweit, M.; Garcia Arredondo, M.; Tfaily, M. M.; Kukkadapu, R. K.; Schulz, M. S.; Lawrence, C. R.

2017-12-01

Plant roots dramatically reshape the soil environments through the release of organic compounds. While root-derived organic compounds are recognized as an important source of soil C, their role in promoting weathering reactions has largely been overlooked. On the one hand, root-driven weathering may generate mineral-organic associations, which can protect soil C for centuries to millennia. On the other hand, root-driven weathering also transforms minerals, potentially disrupting protective mineral-organic associations in the process. Hence root-derived C may not only initiate C accumulation, but also diminish C stocks through disruption of mineral-organic associations. Here we determined the impact of rhizogenic weathering on mineral-organic associations, and associated changes in C storage, across the Santa Cruz Marine Terrace chronosequence (65ka-226ka). Using a combination of high-resolution mass spectrometry, Mössbauer, and X-ray (micro)spectroscopy, we examined mineral-organic associations of deep soil horizons characterized by intense rhizogenic weathering gradients. Initial rhizogenic weathering dramatically increased C stocks, which is directly linked to an increase of microbially-derived C bound to monomeric Fe and Al and nano-goethite. As weathering proceeded, the soil C stocks declined concurrent with an increasingly plant-derived C signature and decreasing crystallinity. X-ray spectromicroscopic analyses revealed strong spatial associations between C and Fe during initial weathering stages, indicative of protective mineral-organic associations. In contrast, later weathering stages showed weaker spatial relationships between C and Fe. We conclude that rhizogenic weathering enhance C storage by creating protective mineral-organic associations in the initial weathering stages. As root-driven weathering proceeds, minerals are transformed into more crystalline phases that retain lower amounts of C. Our results demonstrate that root-induced weathering

Soil Aggregate Stability and Grassland Productivity Associations in a Northern Mixed-Grass Prairie.

Directory of Open Access Journals (Sweden)

Kurt O Reinhart

Full Text Available Soil aggregate stability data are often predicted to be positively associated with measures of plant productivity, rangeland health, and ecosystem functioning. Here we revisit the hypothesis that soil aggregate stability is positively associated with plant productivity. We measured local (plot-to-plot variation in grassland community composition, plant (aboveground biomass, root biomass, % water-stable soil aggregates, and topography. After accounting for spatial autocorrelation, we observed a negative association between % water-stable soil aggregates (0.25-1 and 1-2 mm size classes of macroaggregates and dominant graminoid biomass, and negative associations between the % water-stable aggregates and the root biomass of a dominant sedge (Carex filifolia. However, variation in total root biomass (0-10 or 0-30 cm depths was either negatively or not appreciably associated with soil aggregate stabilities. Overall, regression slope coefficients were consistently negative thereby indicating the general absence of a positive association between measures of plant productivity and soil aggregate stability for the study area. The predicted positive association between factors was likely confounded by variation in plant species composition. Specifically, sampling spanned a local gradient in plant community composition which was likely driven by niche partitioning along a subtle gradient in elevation. Our results suggest an apparent trade-off between some measures of plant biomass production and soil aggregate stability, both known to affect the land's capacity to resist erosion. These findings further highlight the uncertainty of plant biomass-soil stability associations.

Application of positive matrix factorization to identify potential sources of PAHs in soil of Dalian, China

International Nuclear Information System (INIS)

Wang Degao; Tian Fulin; Yang Meng; Liu Chenlin; Li Yifan

2009-01-01

Soil derived sources of polycyclic aromatic hydrocarbons (PAHs) in the region of Dalian, China were investigated using positive matrix factorization (PMF). Three factors were separated based on PMF for the statistical investigation of the datasets both in summer and winter. These factors were dominated by the pattern of single sources or groups of similar sources, showing seasonal and regional variations. The main sources of PAHs in Dalian soil in summer were the emissions from coal combustion average (46%), diesel engine (30%), and gasoline engine (24%). In winter, the main sources were the emissions from coal-fired boiler (72%), traffic average (20%), and gasoline engine (8%). These factors with strong seasonality indicated that coal combustion in winter and traffic exhaust in summer dominated the sources of PAHs in soil. These results suggested that PMF model was a proper approach to identify the sources of PAHs in soil. - PMF model is a proper approach to identify potential sources of PAHs in soil based on the PAH profiles measured in the field and those published in the literature.

Soil metal concentrations and toxicity: Associations with distances to industrial facilities and implications for human health

International Nuclear Information System (INIS)

Aelion, C. Marjorie; Davis, Harley T.; McDermott, Suzanne; Lawson, Andrew B.

2009-01-01

Urban and rural areas may have different levels of environmental contamination and different potential sources of exposure. Many metals, i.e., arsenic (As), lead (Pb), and mercury (Hg), have well-documented negative neurological effects, and the developing fetus and young children are particularly at risk. Using a database of mother and child pairs, three areas were identified: a rural area with no increased prevalence of mental retardation and developmental delay (MR/DD) (Area A), and a rural area (Area B) and an urban area (Area C) with significantly higher prevalence of MR/DD in children as compared to the state-wide average. Areas were mapped and surface soil samples were collected from nodes of a uniform grid. Samples were analyzed for As, barium (Ba), beryllium (Be), chromium (Cr), copper (Cu), Pb, manganese (Mn), nickel (Ni), and Hg concentrations and for soil toxicity, and correlated to identify potential common sources. ArcGIS was used to determine distances between sample locations and industrial facilities, which were correlated with both metal concentrations and soil toxicity. Results indicated that all metal concentrations (except Be and Hg) in Area C were significantly greater than those in Areas A and B (p ≤ 0.0001) and that Area C had fewer correlations between metals suggesting more varied sources of metals than in rural areas. Area C also had a large number of facilities whose distances were significantly correlated with metals, particularly Cr (maximum r = 0.33; p = 0.0002), and with soil toxicity (maximum r = 0.25; p = 0.007) over a large spatial scale. Arsenic was not associated with distance to any facility and may have a different anthropogenic, or natural source. In contrast to Area C, both rural areas had lower concentrations of metals, lower soil toxicity, and a small number of facilities with significant associations between distance and soil metals

Using ensemble models to identify and apportion heavy metal pollution sources in agricultural soils on a local scale

International Nuclear Information System (INIS)

Wang, Qi; Xie, Zhiyi; Li, Fangbai

2015-01-01

This study aims to identify and apportion multi-source and multi-phase heavy metal pollution from natural and anthropogenic inputs using ensemble models that include stochastic gradient boosting (SGB) and random forest (RF) in agricultural soils on the local scale. The heavy metal pollution sources were quantitatively assessed, and the results illustrated the suitability of the ensemble models for the assessment of multi-source and multi-phase heavy metal pollution in agricultural soils on the local scale. The results of SGB and RF consistently demonstrated that anthropogenic sources contributed the most to the concentrations of Pb and Cd in agricultural soils in the study region and that SGB performed better than RF. - Highlights: • Ensemble models including stochastic gradient boosting and random forest are used. • The models were verified by cross-validation and SGB performed better than RF. • Heavy metal pollution sources on a local scale are identified and apportioned. • Models illustrate good suitability in assessing sources in local-scale agricultural soils. • Anthropogenic sources contributed most to soil Pb and Cd pollution in our case. - Multi-source and multi-phase pollution by heavy metals in agricultural soils on a local scale were identified and apportioned.

Identifying sources of soil inorganic pollutants on a regional scale using a multivariate statistical approach: Role of pollutant migration and soil physicochemical properties

International Nuclear Information System (INIS)

Zhang Changbo; Wu Longhua; Luo Yongming; Zhang Haibo; Christie, Peter

2008-01-01

Principal components analysis (PCA) and correlation analysis were used to estimate the contribution of four components related to pollutant sources on the total variation in concentrations of Cu, Zn, Pb, Cd, As, Se, Hg, Fe and Mn in surface soil samples from a valley in east China with numerous copper and zinc smelters. Results indicate that when carrying out source identification of inorganic pollutants their tendency to migrate in soils may result in differences between the pollutant composition of the source and the receptor soil, potentially leading to errors in the characterization of pollutants using multivariate statistics. The stability and potential migration or movement of pollutants in soils must therefore be taken into account. Soil physicochemical properties may offer additional useful information. Two different mechanisms have been hypothesized for correlations between soil heavy metal concentrations and soil organic matter content and these may be helpful in interpreting the statistical analysis. - Principal components analysis with Varimax rotation can help identify sources of soil inorganic pollutants but pollutant migration and soil properties can exert important effects

Soil heavy metal contamination and health risks associated with artisanal gold mining in Tongguan, Shaanxi, China.

Science.gov (United States)

Xiao, Ran; Wang, Shuang; Li, Ronghua; Wang, Jim J; Zhang, Zengqiang

2017-07-01

Soil contamination with heavy metals due to mining activities poses risks to ecological safety and human well-being. Limited studies have investigated heavy metal pollution due to artisanal mining. The present study focused on soil contamination and the health risk in villages in China with historical artisanal mining activities. Heavy metal levels in soils, tailings, cereal and vegetable crops were analyzed and health risk assessed. Additionally, a botany investigation was conducted to identify potential plants for further phytoremediation. The results showed that soils were highly contaminated by residual tailings and previous mining activities. Hg and Cd were the main pollutants in soils. The Hg and Pb concentrations in grains and some vegetables exceeded tolerance limits. Moreover, heavy metal contents in wheat grains were higher than those in maize grains, and leafy vegetables had high concentrations of metals. Ingestion of local grain-based food was the main sources of Hg, Cd, and Pb intake. Local residents had high chronic risks due to the intake of Hg and Pb, while their carcinogenic risk associated with Cd through inhalation was low. Three plants (Erigeron canadensis L., Digitaria ciliaris (Retz.) Koel., and Solanum nigrum L.) were identified as suitable species for phytoremediation. Copyright © 2017. Published by Elsevier Inc.

Diversity of Microbial Carbohydrate-Active enZYmes (CAZYmes) Associated with Freshwater and Soil Samples from Caatinga Biome.

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Andrade, Ana Camila; Fróes, Adriana; Lopes, Fabyano Álvares Cardoso; Thompson, Fabiano L; Krüger, Ricardo Henrique; Dinsdale, Elizabeth; Bruce, Thiago

2017-07-01

Semi-arid and arid areas occupy about 33% of terrestrial ecosystems. However, little information is available about microbial diversity in the semi-arid Caatinga, which represents a unique biome that extends to about 11% of the Brazilian territory and is home to extraordinary diversity and high endemism level of species. In this study, we characterized the diversity of microbial genes associated with biomass conversion (carbohydrate-active enzymes, or so-called CAZYmes) in soil and freshwater of the Caatinga. Our results showed distinct CAZYme profiles in the soil and freshwater samples. Glycoside hydrolases and glycosyltransferases were the most abundant CAZYme families, with glycoside hydrolases more dominant in soil (∼44%) and glycosyltransferases more abundant in freshwater (∼50%). The abundances of individual glycoside hydrolase, glycosyltransferase, and carbohydrate-binding module subfamilies varied widely between soil and water samples. A predominance of glycoside hydrolases was observed in soil, and a higher contribution of enzymes involved in carbohydrate biosynthesis was observed in freshwater. The main taxa associated with the CAZYme sequences were Planctomycetia (relative abundance in soil, 29%) and Alphaproteobacteria (relative abundance in freshwater, 27%). Approximately 5-7% of CAZYme sequences showed low similarity with sequences deposited in non-redundant databases, suggesting putative homologues. Our findings represent a first attempt to describe specific microbial CAZYme profiles for environmental samples. Characterizing these enzyme groups associated with the conversion of carbohydrates in nature will improve our understanding of the significant roles of enzymes in the carbon cycle. We identified a CAZYme signature that can be used to discriminate between soil and freshwater samples, and this signature may be related to the microbial species adapted to the habitat. The data show the potential ecological roles of the CAZYme repertoire and

Associations between soil lead concentrations and populations by race/ethnicity and income-to-poverty ratio in urban and rural areas.

Science.gov (United States)

Aelion, C Marjorie; Davis, Harley T; Lawson, Andrew B; Cai, Bo; McDermott, Suzanne

2013-02-01

Lead (Pb) is a well-studied environmental contaminant that has many negative health effects, especially for children. Both racial/ethnic and income disparities have been documented with respect to exposure to Pb in soils. The objectives of this study were to assess whether soil Pb concentrations in rural and urban areas of South Carolina USA, previously identified as having clusters of intellectual disabilities (ID) in children, were positively associated with populations of minority and low-income individuals and children (≤ 6 years of age). Surface soils from two rural and two urban areas with identified clusters of ID were analyzed for Pb and concentrations were spatially interpolated using inverse distance weighted analysis. Population race/ethnicity and income-to-poverty ratio (ITPR) from United States Census 2000 block group data were aerially interpolated by block group within each area. Urban areas had significantly higher concentrations of Pb than rural areas. Significant positive associations between black, non-Hispanic Latino, individuals and children ≤ 6 years of age and mean estimated Pb concentrations were observed in both urban (r = 0.38, p = 0.0007) and rural (r = 0.53, p = 0.04) areas. Significant positive associations also were observed between individuals and children with an ITPR urban areas. Racial/ethnic minorities and low ITPR individuals, including children, may be at elevated risk for exposure to Pb in soils.

Influence of plant genotype on the cultivable fungi associated to tomato rhizosphere and roots in different soils.

Science.gov (United States)

Poli, Anna; Lazzari, Alexandra; Prigione, Valeria; Voyron, Samuele; Spadaro, Davide; Varese, Giovanna Cristina

2016-01-01

Rhizosphere and root-associated microbiota are crucial in determining plant health and in increasing productivity of agricultural crops. To date, research has mainly focused on the bacterial dimension of the microbiota. However, interest in the mycobiota is increasing, since fungi play a key role in soil ecosystems. We examined the effect of plant genotype, soil, and of Fusarium oxysporum f. sp. lycopersici (Fol) on the cultivable component of rhizosphere and root-associated mycobiota of tomato. Resistant and susceptible varieties were cultivated on two different soils (A and B), under glasshouse conditions. Isolated fungi were identified by morphological and molecular approaches. Differences were found between the rhizosphere and the roots, which in general displayed a lower number of species. The structure of the mycobiota was significantly affected by the soil type in the rhizosphere as well as by the plant genotype within the roots (NPERMANOVA, p fungi. Overall, the results indicated that i) soil type and plant genotype affect the fungal communities; ii) plant roots select few species from the rhizosphere; and iii) the fungal community structure is influenced by Fol. Copyright © 2016 British Mycological Society. Published by Elsevier Ltd. All rights reserved.

Phylogenetic & Physiological Profiling of Microbial Communities of Contaminated Soils/Sediments: Identifying Microbial consortia...

Energy Technology Data Exchange (ETDEWEB)

Terence L. Marsh

2004-05-26

The goals of this study were: (1) survey the microbial community in soil samples from a site contaminated with heavy metals using new rapid molecular techniques that are culture-independent; (2) identify phylogenetic signatures of microbial populations that correlate with metal ion contamination; and (3) cultivate these diagnostic strains using traditional as well as novel cultivation techniques in order to identify organisms that may be of value in site evaluation/management or bioremediation.

Microbiomes associated with infective stages of root-knot and lesion nematodes in soil.

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Ahmed Elhady

Full Text Available Endoparasitic root-knot (Meloidogyne spp. and lesion (Pratylenchus spp. nematodes cause considerable damage in agriculture. Before they invade roots to complete their life cycle, soil microbes can attach to their cuticle or surface coat and antagonize the nematode directly or by induction of host plant defenses. We investigated whether the nematode-associated microbiome in soil differs between infective stages of Meloidogyne incognita and Pratylenchus penetrans, and whether it is affected by variation in the composition of microbial communities among soils. Nematodes were incubated in suspensions of five organically and two integrated horticultural production soils, recovered by sieving and analyzed for attached bacteria and fungi after washing off loosely adhering microbes. Significant effects of the soil type and nematode species on nematode-associated fungi and bacteria were revealed as analyzed by community profiling using denaturing gradient gel electrophoresis. Attached microbes represented a small specific subset of the soil microbiome. Two organic soils had very similar bacterial and fungal community profiles, but one of them was strongly suppressive towards root-knot nematodes. They were selected for deep amplicon sequencing of bacterial 16S rRNA genes and fungal ITS. Significant differences among the microbiomes associated with the two species in both soils suggested specific surface epitopes. Among the 28 detected bacterial classes, Betaproteobacteria, Bacilli and Actinobacteria were the most abundant. The most frequently detected fungal genera were Malassezia, Aspergillus and Cladosporium. Attached microbiomes did not statistically differ between these two soils. However, Malassezia globosa and four fungal species of the family Plectosphaerellaceae, and the bacterium Neorhizobium galegae were strongly enriched on M. incognita in the suppressive soil. In conclusion, the highly specific attachment of microbes to infective stages of

Soil transmitted helminths and associated factors among schoolchildren in government and private primary school in Jimma Town, Southwest Ethiopia.

Science.gov (United States)

Debalke, Serkadis; Worku, Amare; Jahur, Nejat; Mekonnen, Zeleke

2013-11-01

Soil transmitted helminth infections are among the most common human infections. They are distributed throughout the world with high prevalence rates in tropical and sub-tropical countries mainly because of lack of adequate sanitary facilities, inappropriate waste disposal systems, lack of safe water supply, and low socio-economic status. A comparative cross sectional study was conducted from December 2011 to June 2012 to determine and assess the prevalence of soil transmitted helminths and their associated factors among government and private primary school children. Stool samples were collected from 369 randomly selected children and examined microscopically for eggs of soil transmitted helminth following McMaster techniques. Soil samples were collected from different parts of the school compound and microscopic examination was performed for eggs of the helminths using sodium nitrate flotation technique. The overall prevalence rate of soil transmitted helminth infections in private and government schools was 20.9% and 53.5% respectively. T. trichiura was the most common soil transmitted helminth in both schools while hookworm infections were identified in government school students only. Type of school and sex were significantly associated with soil transmitted helminth. Soil contamination rate of the school compounds was 11.25% with predominant parasites of A. lumbricoides. Higher prevalence of soil transmitted helminth infection was found among government school students. Thus, more focus, on personal hygiene and sanitary facilities, should be given to children going to government schools.

Plant-associated bacterial degradation of toxic organic compounds in soil.

LENUS (Irish Health Repository)

McGuinness, Martina

2009-08-01

A number of toxic synthetic organic compounds can contaminate environmental soil through either local (e.g., industrial) or diffuse (e.g., agricultural) contamination. Increased levels of these toxic organic compounds in the environment have been associated with human health risks including cancer. Plant-associated bacteria, such as endophytic bacteria (non-pathogenic bacteria that occur naturally in plants) and rhizospheric bacteria (bacteria that live on and near the roots of plants), have been shown to contribute to biodegradation of toxic organic compounds in contaminated soil and could have potential for improving phytoremediation. Endophytic and rhizospheric bacterial degradation of toxic organic compounds (either naturally occurring or genetically enhanced) in contaminated soil in the environment could have positive implications for human health worldwide and is the subject of this review.

Soil bacterial community shifts associated with sugarcane straw removal

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Pimentel, Laisa; Gumiere, Thiago; Andreote, Fernando; Cerri, Carlos

2017-04-01

In Brazil, the adoption of the mechanical unburned sugarcane harvest potentially increase the quantity of residue left in the field after harvesting. Economically, this material has a high potential for second generation ethanol (2G) production. However, crop residues have an essential role in diverse properties and processes in the soil. The greater part of the uncertainties about straw removal for 2G ethanol production is based on its effects in soil microbial community. In this sense, it is important to identify the main impacts of sugarcane straw removal on soil microbial community. Therefore, we conducted a field study, during one year, in Valparaíso (São Paulo state - Brazil) to evaluate the effects of straw decomposition on soil bacterial community. Specifically, we wanted: i) to compare the rates of straw removal and ii) to evaluate the effects of straw decomposition on soil bacterial groups over one year. The experiment was in a randomized block design with treatments arranged in strip plot. The treatments are different rates of sugarcane straw removal, namely: no removal, 50, 75 and 100% of straw removal. Soil sampling was carried out at 0, 4, 8 and 12 months after the sugarcane harvest (August 2015). Total DNA was extracted from soil using the PowersoilTM DNA Isolation kit. And the abundance of bacterial in each soil sample was estimated via quantification of 16S rRNA gene. The composition of the bacterial communities was estimated via terminal restriction fragment length polymorphism (T-RFLP) analysis, and the T-RF sizes were performed on a 3500 Genetic Analyzer. Finally, the results were examined with GeneMapper 4.1 software. There was bacterial community shifts through the time and among the rates of sugarcane straw removal. Bacterial community was firstly determined by the time scale, which explained 29.16% of total variation. Rates of straw removal explained 11.55% of shifts on bacterial community. Distribution through the time is an important

Phylogenetic analysis of local-scale tree soil associations in a lowland moist tropical forest.

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Laura A Schreeg

Full Text Available BACKGROUND: Local plant-soil associations are commonly studied at the species-level, while associations at the level of nodes within a phylogeny have been less well explored. Understanding associations within a phylogenetic context, however, can improve our ability to make predictions across systems and can advance our understanding of the role of evolutionary history in structuring communities. METHODOLOGY/PRINCIPAL FINDINGS: Here we quantified evolutionary signal in plant-soil associations using a DNA sequence-based community phylogeny and several soil variables (e.g., extractable phosphorus, aluminum and manganese, pH, and slope as a proxy for soil water. We used published plant distributional data from the 50-ha plot on Barro Colorado Island (BCI, Republic of Panamá. Our results suggest some groups of closely related species do share similar soil associations. Most notably, the node shared by Myrtaceae and Vochysiaceae was associated with high levels of aluminum, a potentially toxic element. The node shared by Apocynaceae was associated with high extractable phosphorus, a nutrient that could be limiting on a taxon specific level. The node shared by the large group of Laurales and Magnoliales was associated with both low extractable phosphorus and with steeper slope. Despite significant node-specific associations, this study detected little to no phylogeny-wide signal. We consider the majority of the 'traits' (i.e., soil variables evaluated to fall within the category of ecological traits. We suggest that, given this category of traits, phylogeny-wide signal might not be expected while node-specific signals can still indicate phylogenetic structure with respect to the variable of interest. CONCLUSIONS: Within the BCI forest dynamics plot, distributions of some plant taxa are associated with local-scale differences in soil variables when evaluated at individual nodes within the phylogenetic tree, but they are not detectable by phylogeny

Molecular mechanisms underlying the close association between soil Burkholderia and fungi

Science.gov (United States)

Stopnisek, Nejc; Zühlke, Daniela; Carlier, Aurélien; Barberán, Albert; Fierer, Noah; Becher, Dörte; Riedel, Katharina; Eberl, Leo; Weisskopf, Laure

2016-01-01

Bacterial species belonging to the genus Burkholderia have been repeatedly reported to be associated with fungi but the extent and specificity of these associations in soils remain undetermined. To assess whether associations between Burkholderia and fungi are widespread in soils, we performed a co-occurrence analysis in an intercontinental soil sample collection. This revealed that Burkholderia significantly co-occurred with a wide range of fungi. To analyse the molecular basis of the interaction, we selected two model fungi frequently co-occurring with Burkholderia, Alternaria alternata and Fusarium solani, and analysed the proteome changes caused by cultivation with either fungus in the widespread soil inhabitant B. glathei, whose genome we sequenced. Co-cultivation with both fungi led to very similar changes in the B. glathei proteome. Our results indicate that B. glathei significantly benefits from the interaction, which is exemplified by a lower abundance of several starvation factors that were highly expressed in pure culture. However, co-cultivation also gave rise to stress factors, as indicated by the increased expression of multidrug efflux pumps and proteins involved in oxidative stress response. Our data suggest that the ability of Burkholderia to establish a close association with fungi mainly lies in the capacities to utilize fungal-secreted metabolites and to overcome fungal defense mechanisms. This work indicates that beneficial interactions with fungi might contribute to the survival strategy of Burkholderia species in environments with sub-optimal conditions, including acidic soils. PMID:25989372

Molecular mechanisms underlying the close association between soil Burkholderia and fungi.

Science.gov (United States)

Stopnisek, Nejc; Zühlke, Daniela; Carlier, Aurélien; Barberán, Albert; Fierer, Noah; Becher, Dörte; Riedel, Katharina; Eberl, Leo; Weisskopf, Laure

2016-01-01

Bacterial species belonging to the genus Burkholderia have been repeatedly reported to be associated with fungi but the extent and specificity of these associations in soils remain undetermined. To assess whether associations between Burkholderia and fungi are widespread in soils, we performed a co-occurrence analysis in an intercontinental soil sample collection. This revealed that Burkholderia significantly co-occurred with a wide range of fungi. To analyse the molecular basis of the interaction, we selected two model fungi frequently co-occurring with Burkholderia, Alternaria alternata and Fusarium solani, and analysed the proteome changes caused by cultivation with either fungus in the widespread soil inhabitant B. glathei, whose genome we sequenced. Co-cultivation with both fungi led to very similar changes in the B. glathei proteome. Our results indicate that B. glathei significantly benefits from the interaction, which is exemplified by a lower abundance of several starvation factors that were highly expressed in pure culture. However, co-cultivation also gave rise to stress factors, as indicated by the increased expression of multidrug efflux pumps and proteins involved in oxidative stress response. Our data suggest that the ability of Burkholderia to establish a close association with fungi mainly lies in the capacities to utilize fungal-secreted metabolites and to overcome fungal defense mechanisms. This work indicates that beneficial interactions with fungi might contribute to the survival strategy of Burkholderia species in environments with sub-optimal conditions, including acidic soils.

Soft X-ray spectromicroscopy study of mineral-organic matter associations in pasture soil clay fractions.

Science.gov (United States)

Chen, Chunmei; Dynes, James J; Wang, Jian; Karunakaran, Chithra; Sparks, Donald L

2014-06-17

There is a growing acceptance that associations with soil minerals may be the most important overarching stabilization mechanism for soil organic matter. However, direct investigation of organo-mineral associations has been hampered by a lack of methods that can simultaneously characterize organic matter (OM) and soil minerals. In this study, STXM-NEXAFS spectroscopy at the C 1s, Ca 2p, Fe 2p, Al 1s, and Si 1s edges was used to investigate C associations with Ca, Fe, Al, and Si species in soil clay fractions from an upland pasture hillslope. Bulk techniques including C and N NEXAFS, Fe K-edge EXAFS spectroscopy, and XRD were applied to provide additional information. Results demonstrated that C was associated with Ca, Fe, Al, and Si with no separate phase in soil clay particles. In soil clay particles, the pervasive C forms were aromatic C, carboxyl C, and polysaccharides with the relative abundance of carboxyl C and polysaccharides varying spatially at the submicrometer scale. Only limited regions in the soil clay particles had aliphatic C. Good C-Ca spatial correlations were found for soil clay particles with no CaCO3, suggesting a strong role of Ca in organo-mineral assemblage formation. Fe EXAFS showed that about 50% of the total Fe in soils was contained in Fe oxides, whereas Fe-bearing aluminosilicates (vermiculite and Illite) accounted for another 50%. Fe oxides in the soil were mainly crystalline goethite and hematite, with lesser amounts of poorly crystalline ferrihydrite. XRD revealed that soil clay aluminosilicates were hydroxy-interlayered vermiculite, Illite, and kaolinite. C showed similar correlation with Fe to Al and Si, implying a similar association of Fe oxides and aluminosilicates with organic matter in organo-mineral associations. These direct microscopic determinations can help improve understanding of organo-mineral interactions in soils.

Soil carbon mineralization following biochar addition associated with external nitrogen

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Rudong Zhao

2015-12-01

Full Text Available Biochar has been attracting increasing attention for its potentials of C sequestration and soil amendment. This study aimed to understand the effects of combining biochar with additional external N on soil C mineralization. A typical red soil (Plinthudults was treated with two biochars made from two types of plantation-tree trunks (soil-biochar treatments, and was also treated with external N (soil-biochar-N treatments. All treatments were incubated for 42 d. The CO2-C released from the treatments was detected periodically. After the incubation, soil properties such as pH, microbial biomass C (MBC, and microbial biomass N (MBN were measured. The addition of biochar with external N increased the soil pH (4.31-4.33 compared to the soil treated with external N only (4.21. This was not observed in the comparison of soil-biochar treatments (4.75-4.80 to soil only (4.74. Biochar additions (whether or not they were associated with external N increased soil MBC and MBN, but decreased CO2-C value per unit total C (added biochar C + soil C according to the model fitting. The total CO2-C released in soil-biochar treatments were enhanced compared to soil only (i.e., 3.15 vs. 2.57 mg and 3.23 vs. 2.45 mg, which was attributed to the labile C fractions in the biochars and through soil microorganism enhancement. However, there were few changes in soil C mineralization in soil-biochar-N treatments. Additionally, the potentially available C per unit total C in soil-biochar-N treatments was lower than that observed in the soil-biochar treatments. Therefore, we believe in the short term, that C mineralization in the soil can be enhanced by biochar addition, but not by adding external N concomitantly.

Soil fertility erosion and the associated cost of NPK removed under ...

African Journals Online (AJOL)

Soil fertility erosion and the associated cost of NPK removed under different soil and ... to study the effect of different tillage practices and mulching rates on fertility ... hand plough-harrow-plant and plough-plant tillage, respectively (1 US Dollar ...

Dung Beetles Associated with Agroecosystems of Southern Brazil: Relationship with Soil Properties

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Patrícia Menegaz de Farias

Full Text Available ABSTRACT Knowing the biodiversity of dung beetles in agricultural and livestock environments is the basis for understanding the contribution that these organisms make in nutrient cycling and ecosystem functions. The aim of the present study was to investigate the structure of copronecrophagous dung beetle communities inhabiting the main agroecosystems in southern Brazil and correlate the presence of these organisms with soil properties. From December 2012 to April 2013, samples of dung beetles were taken in the municipality of Tubarão, Santa Catarina, Brazil (28° 28’ S; 48° 56’ W in corn, bean, and sugarcane crops, and in cattle pastures. Beetles were captured in 16 sampling sites, four from each agroecosystem, following a standardized methodology: 10 baited pitfall traps (feces and rotting meat at a spacing of 50 m with exposure for 48 h. The beetles were identified, weighed, and measured. Soil analyses were performed in order to correlate data on organic matter, texture, macro and micronutrients, and pH with data on the abundance of beetle species using canonical correspondence analysis. A total of 110 individuals belonging to 10 species of dung beetles was found. Twenty-four individuals from seven species (with total biomass of 2.4 g were found in the corn crop; five individuals from three species (1.8 g were found in the bean crop; 81 individuals from nine species (30.3 g were found in cattle pasture areas; and lastly, there were no dung beetles recorded in the sugarcane crop. In areas of cattle grazing, the tunnelers Dichotomius nisus and Trichillum externepunctatum correlated positively with organic matter content, whereas the roller species Canthon chalybaeus correlated positively with soil texture, preferring sandier soils. In corn crop areas, D. nisus was again correlated with organic matter content. Paracoprid dung beetle species were correlated with organic matter content in the soil, and species belonging to the roller

The availability of soil-associated radionuclides for uptake after inadvertent ingestion by humans

International Nuclear Information System (INIS)

Shaw, S.; Green, N.

2002-01-01

Assessments of the radiological impact of radionuclides released into the environment generally take into account the inadvertent ingestion of radionuclides associated with soil or sediment. Such assessments often assume that gut uptake factors for radionuclides that are biologically incorporated in food are also applicable when the ingested activity is associated with soil. Studies of the availability of soil-associated radionuclides after ingestion have been mainly conducted on ruminant animals and few data exist for humans. The digestive tract of ruminants is totally different from that of a mono-gastric animal and so the availability estimated from the animal studies may not be valid in the case of man. A simple in-vitro enzymolysis procedure was therefore developed to simulate human digestion closely. The measured availability of 137 Cs, 241 Am, 239 PU and 90 Sr associated with loam, sand and peat soils was about 3%, 3%, 10% and 50% respectively. (author)

Application of Geomorphologic Factors for Identifying Soil Loss in Vulnerable Regions of the Cameron Highlands

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Kahhoong Kok

2018-03-01

Full Text Available The main purpose of this study is to propose a methodology for identifying vulnerable regions in the Cameron Highlands that are susceptible to soil loss, based on runoff aggregation structure and the energy expenditure pattern of the natural river basin, within the framework of power law distribution. To this end, three geomorphologic factors, namely shear stress and stream power, as well as the drainage area of every point in the basin of interest, have been extracted using GIS, and then their complementary cumulative distributions are graphically analyzed by fitting them to power law distribution, with the purpose of identifying the sensitive points within the basin that are susceptible to soil loss with respect to scaling regimes of shear stress and stream power. It is observed that the range of vulnerable regions by the scaling regime of shear stress is much narrower than by the scaling regime of stream power. This result seems to suggest that shear stress is a scale-dependent factor, which does not follow power law distribution and does not adequately reflect the energy expenditure pattern of a river basin. Therefore, stream power is preferred as a more reasonable factor for the evaluation of soil loss. The methodology proposed in this study can be validated by visualizing the path of soil loss, which is generated from the hillslope process (characterized by the local slope to the valley through a fluvial process (characterized by the drainage area as well as the local slope.

Effects of Pedogenic Fe Oxides on Soil Aggregate-Associated Carbon

Science.gov (United States)

Asefaw Berhe, A.; Jin, L.

2017-12-01

Carbon sequestration is intimately related to the soil structure, mainly soil aggregate dynamics. Carbon storage in soil aggregates has been recognized as an important carbon stabilization mechanism in soils. Organic matter and pedogenic Fe oxides are major binding agents that facilitate soil aggregate formation and stability. However, few studies have investigated how different forms of pedogenic Fe oxides can affect soil carbon distribution in different aggregate-size fractions. We investigated sequentially extracted pedogenic Fe oxides (in the order of organically complexed Fe extracted with sodium pyrophosphate, poorly-crystalline Fe oxides extracted with hydroxylamine hydrochloride, and crystalline Fe oxides extracted with dithionite hydrochloride) and determined the amount and nature of C in macroaggregates (2-0.25mm), microaggregates (0.25-0.053mm), and two silt and clay fractions (0.053-0.02mm, and soil from Sierra Nevada mountain in California. We also determined how pedogenic Fe oxides affect soil carbon distribution along soil depth gradients. Findings of our study revealed that the proportion of organic matter complexed Fe decreased, but the proportion of crystalline Fe increased with increasing soil depths. Poorly crystalline Fe oxides (e.g. ferrihydrite) was identified as a major Fe oxide in surface soil, whereas crystalline Fe oxides (e.g. goethite) were found in deeper soil layers. These results suggest that high concentration of organic matter in surface soil suppressed Fe crystallization. Calcium cation was closely related to the pyrophosphate extractable Fe and C, which indicates that calcium may be a major cation that contribute to the organic matter complexed Fe and C pool. Increasing concentrations of extractable Fe and C with decreasing aggregate size fractions also suggests that Fe oxides play an important role in formation and stability of silt and clay fractions, and leading to further stabilization of carbon in soil. Our findings provide

Determination of factors associated with natural soil suppressivity to potato common scab.

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Marketa Sagova-Mareckova

Full Text Available Common scab of potatoes is a disease, which is difficult to manage due to complex interactions of the pathogenic bacteria (Streptomyces spp. with soil, microbial community and potato plants. In Bohemian-Moravian Highlands in the Czech Republic two sites (Vyklantice and Zdirec were selected for a study of common scab disease suppressivity. At both sites, a field with low disease severity occurs next to one with high severity and the situation was regularly observed over four decades although all four fields undergo a crop rotation. In the four fields, quantities of bacteria, actinobacteria and the gene txtB from the biosynthetic gene cluster of thaxtomin, the main pathogenicity factor of common scab, were analyzed by real-time PCR. Microbial community structure was compared by terminal fragment length polymorphism analysis. Soil and potato periderm were characterized by contents of carbon, nitrogen, phosphorus, sulphur, calcium, magnesium, and iron. Quality of organic matter was assessed by high performance liquid chromatography of soil extracts. The study demonstrated that the suppressive character of the fields is locally specific. At Zdirec, the suppressivity was associated with low txtB gene copies in bulk soil, while at Vyklantice site it was associated with low txtB gene copies in the tuberosphere. The differences were discussed with respect to the effect of abiotic conditions at Zdirec and interaction between potato plant and soil microbial community at Vyklantice. Soil pH, Ca soil content or cation concentrations, although different were not in the range to predict the disease severity. Low severity of common scab was associated with low content of soil C, N, C/N, Ca and Fe suggesting that oligotrophic conditions may be favorable to common scab suppression.

Determination of factors associated with natural soil suppressivity to potato common scab.

Science.gov (United States)

Sagova-Mareckova, Marketa; Daniel, Ondrej; Omelka, Marek; Kristufek, Vaclav; Divis, Jiri; Kopecky, Jan

2015-01-01

Common scab of potatoes is a disease, which is difficult to manage due to complex interactions of the pathogenic bacteria (Streptomyces spp.) with soil, microbial community and potato plants. In Bohemian-Moravian Highlands in the Czech Republic two sites (Vyklantice and Zdirec) were selected for a study of common scab disease suppressivity. At both sites, a field with low disease severity occurs next to one with high severity and the situation was regularly observed over four decades although all four fields undergo a crop rotation. In the four fields, quantities of bacteria, actinobacteria and the gene txtB from the biosynthetic gene cluster of thaxtomin, the main pathogenicity factor of common scab, were analyzed by real-time PCR. Microbial community structure was compared by terminal fragment length polymorphism analysis. Soil and potato periderm were characterized by contents of carbon, nitrogen, phosphorus, sulphur, calcium, magnesium, and iron. Quality of organic matter was assessed by high performance liquid chromatography of soil extracts. The study demonstrated that the suppressive character of the fields is locally specific. At Zdirec, the suppressivity was associated with low txtB gene copies in bulk soil, while at Vyklantice site it was associated with low txtB gene copies in the tuberosphere. The differences were discussed with respect to the effect of abiotic conditions at Zdirec and interaction between potato plant and soil microbial community at Vyklantice. Soil pH, Ca soil content or cation concentrations, although different were not in the range to predict the disease severity. Low severity of common scab was associated with low content of soil C, N, C/N, Ca and Fe suggesting that oligotrophic conditions may be favorable to common scab suppression.

Soil Ingestion is Associated with Child Diarrhea in an Urban Slum of Nairobi, Kenya.

Science.gov (United States)

Bauza, Valerie; Ocharo, R M; Nguyen, Thanh H; Guest, Jeremy S

2017-03-01

AbstractDiarrhea is a leading cause of mortality in children under 5 years of age. We conducted a cross-sectional study of 54 children aged 3 months to 5 years old in Kibera, an urban slum in Nairobi, Kenya, to assess the relationship between caregiver-reported soil ingestion and child diarrhea. Diarrhea was significantly associated with soil ingestion (adjusted odds ratio = 9.9, 95% confidence interval = 2.1-47.5). Soil samples from locations near each household were also collected and analyzed for Escherichia coli and a human-associated Bacteroides fecal marker (HF183). Escherichia coli was detected in 100% of soil samples (mean 5.5 log colony forming units E. coli per gram of dry soil) and the Bacteroides fecal marker HF183 was detected in 93% of soil samples. These findings suggest that soil ingestion may be an important transmission pathway for diarrheal disease in urban slum settings.

Soil fauna: key to new carbon models

OpenAIRE

Filser, Juliane; Faber, Jack H.; Tiunov, Alexei V.; Brussaard, Lijbert; Frouz, Jan; Deyn, Gerlinde; Uvarov, Alexei V.; Berg, Matty P.; Lavelle, Patrick; Loreau, Michel; Wall, Diana H.; Querner, Pascal; Eijsackers, Herman; Jiménez, Juan José

2016-01-01

Soil organic matter (SOM) is key to maintaining soil fertility, mitigating climate change, combatting land degradation, and conserving above- and below-ground biodiversity and associated soil processes and ecosystem services. In order to derive management options for maintaining these essential services provided by soils, policy makers depend on robust, predictive models identifying key drivers of SOM dynamics. Existing SOM models and suggested guidelines for future SOM modelling are defined ...

Progress Towards Identifying and Quantifying the Organic Ice Nucleating Particles in Soils and Aerosols

Science.gov (United States)

Hill, T. C. J.; DeMott, P. J.; Fröhlich-Nowoisky, J.; Tobo, Y.; Suski, K. J.; Levin, E. J.; Kreidenweis, S. M.; Franc, G. D.

2014-12-01

Soil and plant surfaces emit ice nucleating particles (INP) to the atmosphere, especially when disturbed by wind, harvesting, rain or fire. Organic (biogenic) INP are abundant in most soils and dominate the population that nucleate >-15°C. For example, the sandy topsoil of sagebrush shrubland, a widespread ecotype prone to wind erosion after fire, contains ~106 organic INP g-1 at -6°C. The relevance of organic INP may also extend to colder temperatures than previously thought: Particles of soil organic matter (SOM) have been shown to be more important than mineral particles for the ice nucleating ability of agricultural soil dusts to -34°C. While the abundance of ice nucleation active (INA) bacteria on plants has been established, the identity of the organic INP in and emitted by soils remains a 40-year-old mystery. The need to understand their production and release is highlighted by recent findings that INA bacteria (measured with qPCR) account for few, if any, of the warm-temperature organic INP that predominate in boundary layer aerosols and snow; organic INP lofted with soil dusts seem a likely source. The complexity of SOM hinders its investigation. It contains decomposing plant materials, a diverse microbial and microfaunal community, humus, and inert organic matter. All are biochemically complex and all may contain ice nucleating constituents, either by design or by chance. Indeed the smoothness of the INP temperature spectra of soils is indicative of numerous, overlapping distributions of INP. We report recent progress in identifying and quantifying the organic INP in soils and boundary layer aerosols representative of West Central U.S. ecosystems, and how their characteristics may affect their dispersal. Chemical, enzymatic and DNA-based tests were used to assess contributions of INP from plant tissues, INA bacteria, INA fungi, organic crystals, monolayers of aliphatic alcohols, carbohydrates, and humic substances, while heat- and peroxide-based tests

Using multivariate analyses and GIS to identify pollutants and their spatial patterns in urban soils in Galway, Ireland

International Nuclear Information System (INIS)

Zhang Chaosheng

2006-01-01

Galway is a small but rapidly growing tourism city in western Ireland. To evaluate its environmental quality, a total of 166 surface soil samples (0-10 cm depth) were collected from parks and grasslands at the density of 1 sample per 0.25 km 2 at the end of 2004. All samples were analysed using ICP-AES for the near-total concentrations of 26 chemical elements. Multivariate statistics and GIS techniques were applied to classify the elements and to identify elements influenced by human activities. Cluster analysis (Canada) and principal component analysis (PCA) classified the elements into two groups: the first group predominantly derived from natural sources, the second being influenced by human activities. GIS mapping is a powerful tool in identifying the possible sources of pollutants. Relatively high concentrations of Cu, Pb and Zn were found in the city centre, old residential areas, and along major traffic routes, showing significant effects of traffic pollution. The element As is enriched in soils of the old built-up areas, which can be attributed to coal and peat combustion for home heating. Such significant spatial patterns of pollutants displayed by urban soils may imply potential health threat to residents of the contaminated areas of the city. - Multivariate statistics and GIS are useful tools to identify pollutants in urban soils

Using Lead Concentrations and Stable Lead Isotope Ratios to Identify Contamination Events in Alluvial Soils

International Nuclear Information System (INIS)

Saint-Laurent, D.; St-Laurent, J.; Hahni, M.; Chapados, C.; Ghaleb, B.

2010-01-01

Soils contaminated with hydrocarbons (C10,C50), polycyclic aromatic hydrocarbons (PAHs), and other contaminants (e.g., As, Cd, Cu, Pb) were recently discovered on the banks of the Saint-Francois and Massawippi rivers. Alluvial soils are contaminated over a distance of 100 kilometers, and the level of the contaminated-hydrocarbon layer in the soil profiles is among the highest at the Windsor and Richmond sites. Concentrations of lead and stable lead isotope ratios ( 204 Pb/ 206 Pb, 206 Pb/ 207 Pb, 208 Pb/ 20 '6Pb) are also used to identify contamination events. The maximum and minimum values detected in soil profiles for arsenic, cadmium, and lead vary from 3.01 to 37.88?mg kg -1 (As), 0.11 to 0.81?mg kg-1 (Cd) 12.32 to 149.13?mg kg -1 (Pb), respectively, while the 207 Pb/ 206 Pb isotopic ratio values are between 0.8545 and 0.8724 for all the profiles. The highest values of trace elements (As, Pb and Zn) were detected in the hydrocarbon layer (C10,C50), most often located at the bottom of the profiles (160, 200, and 220 cm in depth). The various peaks recorded in the soils and the position of the profiles suggest that various contaminants were transported by the river on several occasions and infiltrated the soil matrix or deposited on flood plains during successive floods. Atmospheric particles which entered the river or deposited on riverbanks must also be considered as another source of pollution recorded in soils

Using Lead Concentrations and Stable Lead Isotope Ratios to Identify Contamination Events in Alluvial Soils

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Diane Saint-Laurent

2010-01-01

Full Text Available Soils contaminated with hydrocarbons (C10–C50, polycyclic aromatic hydrocarbons (PAHs, and other contaminants (e.g., As, Cd, Cu, Pb were recently discovered on the banks of the Saint-François and Massawippi rivers. Alluvial soils are contaminated over a distance of 100 kilometers, and the level of the contaminated-hydrocarbon layer in the soil profiles is among the highest at the Windsor and Richmond sites. Concentrations of lead and stable lead isotope ratios (204Pb/206Pb, 207Pb/206Pb, 208Pb/206Pb are also used to identify contamination events. The maximum and minimum values detected in soil profiles for arsenic, cadmium, and lead vary from 3.01 to 37.88 mg kg-1 (As, 0.11 to 0.81 mg kg-1 (Cd 12.32 to 149.13 mg kg-1 (Pb, respectively, while the 207Pb/206Pb isotopic ratio values are between 0.8545 and 0.8724 for all the profiles. The highest values of trace elements (As, Pb and Zn were detected in the hydrocarbon layer (C10–C50, most often located at the bottom of the profiles (160, 200, and 220 cm in depth. The various peaks recorded in the soils and the position of the profiles suggest that various contaminants were transported by the river on several occasions and infiltrated the soil matrix or deposited on floodplains during successive floods. Atmospheric particles which entered the river or deposited on riverbanks must also be considered as another source of pollution recorded in soils.

Associations between standardized school performance tests and mixtures of Pb, Zn, Cd, Ni, Mn, Cu, Cr, Co, and V in community soils of New Orleans

International Nuclear Information System (INIS)

Zahran, Sammy; Mielke, Howard W.; Weiler, Stephan; Hempel, Lynn; Berry, Kenneth J.; Gonzales, Christopher R.

2012-01-01

In New Orleans a strong inverse association was previously identified between community soil lead and 4th grade school performance. This study extends the association to zinc, cadmium, nickel, manganese, copper, chromium, cobalt, and vanadium in community soil and their comparative effects on 4th grade school performance. Adjusting for poverty, food security, racial composition, and teacher-student ratios, regression results show that soil metals variously reduce and compress student scores. Soil metals account for 22%–24% while food insecurity accounts for 29%–37% of variation in school performance. The impact on grade point averages were Ni > Co > Mn > Cu ∼Cr ∼ Cd > Zn > Pb, but metals are mixtures in soils. The quantities of soil metal mixtures vary widely across the city with the largest totals in the inner city and smallest totals in the outer city. School grade point averages are lowest where the soil metal mixtures and food insecurity are highest. - Highlights: ► Mixtures of metals vary; largest totals in the inner city and lowest in the outer city. ► An inverse association between soil Pb and 4th grade school performance is known. ► Assuming the same exposure pathway, multiple metals are compared to performance. ► Soil metals account for 22%–24% of variation in school test performance. ► Soil metal plus food insecurity accounts for 54% of explained variance. - Controlling for potential confounding variables, the accumulation of metals (Pb, Zn, Cd, Ni, Mn, Cu, Cr, and Co) in neighborhood soils is significantly negatively associated with 4th grade school performance on standardized tests in New Orleans.

Aggregate-associated carbon and nitrogen in reclaimed sandy loam soils

Energy Technology Data Exchange (ETDEWEB)

Wick, A.F.; Stahl, P.D.; Ingram, L.J. [Virginia Polytechnic Institute & State University, Blacksburg, VA (United States)

2009-11-15

Minimal research has been conducted on aggregate, C, and N in coarse-textured soils used to reclaim surface coal mine lands. Furthermore, little is known about the contribution different plant communities make to the recovery of aggregation in these soils. Two chronosequences of semiarid reclaimed sites with sandy loam soils were sampled under shrub- and grass-dominated communities. Aggregation, aggregate fractions, and associated C and N were measured. No definitive trends of increasing macroaggregates between sites were observed undershrubs; however, macro- and microaggregation was greater in the 16-yr-old (0.20 and 0.23 kg aggregate kg{sup -1} soil, respectively) than in the 5-yr-old soils (0.02 and 0.08 kg aggregate kg{sup -1} soil, respectively) under grasses. Although C and N concentrations were drastically reduced (50-75%) with mining activity between the <1-yr-old and native soils, aggregate C and N concentrations tinder shrubs and grasses were similar to each other and to the native soils in the 5-yr-old site. Sods under grass in the 16-yr-old site had lower available and aggregate-occluded C and N concentrations than the 5-yr-old site, while C and N concentrations did not change between 5- and 16-yr-old soils under shrubs. Conversely, aggregate C and N pool sizes under shrubs and grasses both increased with site age to conditions similar to those observed in the native soil. Reclaimed shrub site soils had consistently higher C concentrations in the older reclaimed sites (10 and 16 yr old) than the soils under grasses, indicating greater accumulation and retention of C and N in organic material under shrub than grass communities in semiarid reclaimed sites.

The chemistry and behaviour of antimony in the soil environment with comparisons to arsenic: A critical review

International Nuclear Information System (INIS)

Wilson, Susan C.; Lockwood, Peter V.; Ashley, Paul M.; Tighe, Matthew

2010-01-01

This article provides a critical review of the environmental chemistry of inorganic antimony (Sb) in soils, comparing and contrasting findings with those of arsenic (As). Characteristics of the Sb soil system are reviewed, with an emphasis on speciation, sorption and phase associations, identifying differences between Sb and As behaviour. Knowledge gaps in environmentally relevant Sb data for soils are identified and discussed in terms of the limitations this imposes on understanding the fate, behaviour and risks associated with Sb in environmental soil systems, with particular reference to mobility and bioavailability. - A critical and comparative review of Sb and As chemistry and associations in soil systems identifies research directions needed for better understanding of risks.

Associations between soil variables and vegetation structure and composition of Caribbean dry forests

Science.gov (United States)

Elvia M. Melendez-Ackerman; Julissa Rojas-Sandoval; Danny S. Fernandez; Grizelle Gonzalez; Hana Lopez; Jose Sustache; Mariely Morales; Miguel Garcia-Bermudez; Susan Aragon

2016-01-01

Soil–vegetation associations have been understudied in tropical dry forests when compared to the amount of extant research on this issue in tropical wet forests. Recent studies assert that vegetation in tropical dry forests is highly heterogeneous and that soil variability may be a contributing factor. In this study, we evaluated the relationship between soil variables...

Analysis of soil microbial community structure and enzyme activities associated with negative effects of pseudostellaria heterophylla consecutive monoculture on yield

International Nuclear Information System (INIS)

Lin, S.; Lin, W.X.

2015-01-01

Pseudostellaria heterophylla is an important medicinal plant in China. However, cultivation of P. heterophylla using consecutive monoculture results in significant reductions in yield and quality. In this study, terminal-restriction fragment length polymorphism (T-RFLP) analysis and measurement of soil enzyme activities were used to investigate the regulation of soil micro-ecology to identify ways to overcome the negative effects of P. heterophylla consecutive monoculture. T-RFLP analysis showed that rice/P. heterophylla (RP) and bean/P. heterophylla (BP) crop rotation systems increased the number and diversity of microbial groups in P. heterophylla rhizosphere soil. In particular, the RP and BP crop rotations increased the number and abundance of beneficial bacterial species compared with two-year consecutive monoculture of P. heterophylla. The presence of these beneficial bacteria was positively correlated with soil enzyme activities which increased in rhizosphere soils of the RP and BP crop rotation systems. The results indicated that crop rotation systems could increase activities of key soil enzymes and beneficial microbial groups and improve soil health. This study could provide a theoretical basis to resolve the problems associated with P. heterophylla consecutive monoculture. (author)

Assessing soil quality indicator under different land use and soil erosion using multivariate statistical techniques.

Science.gov (United States)

Nosrati, Kazem

2013-04-01

Soil degradation associated with soil erosion and land use is a critical problem in Iran and there is little or insufficient scientific information in assessing soil quality indicator. In this study, factor analysis (FA) and discriminant analysis (DA) were used to identify the most sensitive indicators of soil quality for evaluating land use and soil erosion within the Hiv catchment in Iran and subsequently compare soil quality assessment using expert opinion based on soil surface factors (SSF) form of Bureau of Land Management (BLM) method. Therefore, 19 soil physical, chemical, and biochemical properties were measured from 56 different sampling sites covering three land use/soil erosion categories (rangeland/surface erosion, orchard/surface erosion, and rangeland/stream bank erosion). FA identified four factors that explained for 82 % of the variation in soil properties. Three factors showed significant differences among the three land use/soil erosion categories. The results indicated that based upon backward-mode DA, dehydrogenase, silt, and manganese allowed more than 80 % of the samples to be correctly assigned to their land use and erosional status. Canonical scores of discriminant functions were significantly correlated to the six soil surface indices derived of BLM method. Stepwise linear regression revealed that soil surface indices: soil movement, surface litter, pedestalling, and sum of SSF were also positively related to the dehydrogenase and silt. This suggests that dehydrogenase and silt are most sensitive to land use and soil erosion.

Identifying Watershed Regions Sensitive to Soil Erosion and Contributing to Lake Eutrophication—A Case Study in the Taihu Lake Basin (China)

Science.gov (United States)

Lin, Chen; Ma, Ronghua; He, Bin

2015-01-01

Taihu Lake in China is suffering from severe eutrophication partly due to non-point pollution from the watershed. There is an increasing need to identify the regions within the watershed that most contribute to lake water degradation. The selection of appropriate temporal scales and lake indicators is important to identify sensitive watershed regions. This study selected three eutrophic lake areas, including Meiliang Bay (ML), Zhushan Bay (ZS), and the Western Coastal region (WC), as well as multiple buffer zones next to the lake boundary as the study sites. Soil erosion intensity was designated as a watershed indicator, and the lake algae area was designated as a lake quality indicator. The sensitive watershed region was identified based on the relationship between these two indicators among different lake divisions for a temporal sequence from 2000 to 2012. The results show that the relationship between soil erosion modulus and lake quality varied among different lake areas. Soil erosion from the two bay areas was more closely correlated with water quality than soil erosion from the WC region. This was most apparent at distances of 5 km to 10 km from the lake, where the r2 was as high as 0.764. Results indicate that soil erosion could be used as an indicator for identifying key watershed protection areas. Different lake areas need to be considered separately due to differences in geographical features, land use, and the corresponding effects on lake water quality. PMID:26712772

Identifying Watershed Regions Sensitive to Soil Erosion and Contributing to Lake Eutrophication--A Case Study in the Taihu Lake Basin (China).

Science.gov (United States)

Lin, Chen; Ma, Ronghua; He, Bin

2015-12-24

Taihu Lake in China is suffering from severe eutrophication partly due to non-point pollution from the watershed. There is an increasing need to identify the regions within the watershed that most contribute to lake water degradation. The selection of appropriate temporal scales and lake indicators is important to identify sensitive watershed regions. This study selected three eutrophic lake areas, including Meiliang Bay (ML), Zhushan Bay (ZS), and the Western Coastal region (WC), as well as multiple buffer zones next to the lake boundary as the study sites. Soil erosion intensity was designated as a watershed indicator, and the lake algae area was designated as a lake quality indicator. The sensitive watershed region was identified based on the relationship between these two indicators among different lake divisions for a temporal sequence from 2000 to 2012. The results show that the relationship between soil erosion modulus and lake quality varied among different lake areas. Soil erosion from the two bay areas was more closely correlated with water quality than soil erosion from the WC region. This was most apparent at distances of 5 km to 10 km from the lake, where the r² was as high as 0.764. Results indicate that soil erosion could be used as an indicator for identifying key watershed protection areas. Different lake areas need to be considered separately due to differences in geographical features, land use, and the corresponding effects on lake water quality.

Isolation and identification of soil fungi isolates from forest soil for flooded soil recovery

Science.gov (United States)

Hazwani Aziz, Nor; Zainol, Norazwina

2018-04-01

Soil fungi have been evaluated for their ability in increasing and recovering nitrogen, phosphorus and potassium content in flooded soil and in promoting the growth of the host plant. Host plant was cultivated in a mixture of fertile forest soil (nutrient-rich soil) and simulated flooded soil (nutrient-poor soil) in an optimized soil condition for two weeks. The soil sample was harvested every day until two weeks of planting and was tested for nitrogen, phosphorus and potassium concentration. Soil fungi were isolated by using dilution plating technique and was identified by Biolog’s Microbial Systems. The concentration of nitrogen, phosphorus, and potassium was found to be increasing after two weeks by two to three times approximately from the initial concentration recorded. Two fungi species were identified with probability more than 90% namely Aspergillus aculeatus and Paecilomyces lilacinus. Both identified fungi were found to be beneficial in enhancing plant growth and increasing the availability of nutrient content in the soil and thus recovering the nutrient content in the flooded soil.

Mean residence time of soil organic matter associated with kaolinite and smectite

NARCIS (Netherlands)

Wattel-Koekkoek, E.J.W.; Buurman, P.; Plicht, van der J.; Wattel, J.T.; Breemen, van N.

2003-01-01

To gain insight into the effect of clay mineralogy on the turnover of organic matter, we analysed the C-14 activity of soil organic matter associated with clay in soils dominated by kaolinite and smectite in natural savanna systems in seven countries. Assuming that carbon inputs and outputs are in

Mean residence time of soil organic matter associated with kaolinite and smectite

NARCIS (Netherlands)

Wattel-Koekkoek, E.J.W.; Buurman, P.; Plicht, J. van der; Wattel, E.; Breemen, N. van

To gain insight into the effect of clay mineralogy on the turnover of organic matter, we analysed the C-14 activity of soil organic matter associated with clay in soils dominated by kaolinite and smectite in natural savanna systems in seven countries. Assuming that carbon inputs and outputs are in

An Integrated H-G Scheme Identifying Areas for Soil Remediation and Primary Heavy Metal Contributors: A Risk Perspective

OpenAIRE

Bin Zou; Xiaolu Jiang; Xiaoli Duan; Xiuge Zhao; Jing Zhang; Jingwen Tang; Guoqing Sun

2017-01-01

Traditional sampling for soil pollution evaluation is cost intensive and has limited representativeness. Therefore, developing methods that can accurately and rapidly identify at-risk areas and the contributing pollutants is imperative for soil remediation. In this study, we propose an innovative integrated H-G scheme combining human health risk assessment and geographical detector methods that was based on geographical information system technology and validated its feasibility in a renewabl...

Soil Characteristics Driving Arbuscular Mycorrhizal Fungal Communities in Semiarid Mediterranean Soils.

Science.gov (United States)

Alguacil, Maria Del Mar; Torres, Maria Pilar; Montesinos-Navarro, Alicia; Roldán, Antonio

2016-06-01

We investigated communities of arbuscular mycorrhizal fungi (AMF) in the roots and the rhizosphere soil of Brachypodium retusum in six different natural soils under field conditions. We explored phylogenetic patterns of AMF composition using indicator species analyses to find AMF associated with a given habitat (root versus rhizosphere) or soil type. We tested whether the AMF characteristics of different habitats or contrasting soils were more closely related than expected by chance. Then we used principal-component analysis and multivariate analysis of variance to test for the relative contribution of each factor in explaining the variation in fungal community composition. Finally, we used redundancy analysis to identify the soil properties that significantly explained the differences in AMF communities across soil types. The results pointed out a tendency of AMF communities in roots to be closely related and different from those in the rhizosphere soil. The indicator species analyses revealed AMF associated with rhizosphere soil and the root habitat. Soil type also determined the distribution of AMF communities in soils, and this effect could not be attributed to a single soil characteristic, as at least three soil properties related to microbial activity, i.e., pH and levels of two micronutrients (Mn and Zn), played significant roles in triggering AMF populations. Communities of arbuscular mycorrhizal fungi (AMF) are main components of soil biota that can determine the productivity of ecosystems. These fungal assemblages vary across host plants and ecosystems, but the main ecological processes that shape the structures of these communities are still largely unknown. A field study in six different soil types from semiarid areas revealed that AMF communities are significantly influenced by habitat (soil versus roots) and soil type. In addition, three soil properties related to microbiological activity (i.e., pH and manganese and zinc levels) were the main factors

Soil Characteristics Driving Arbuscular Mycorrhizal Fungal Communities in Semiarid Mediterranean Soils

Science.gov (United States)

Torres, Maria Pilar; Montesinos-Navarro, Alicia; Roldán, Antonio

2016-01-01

ABSTRACT We investigated communities of arbuscular mycorrhizal fungi (AMF) in the roots and the rhizosphere soil of Brachypodium retusum in six different natural soils under field conditions. We explored phylogenetic patterns of AMF composition using indicator species analyses to find AMF associated with a given habitat (root versus rhizosphere) or soil type. We tested whether the AMF characteristics of different habitats or contrasting soils were more closely related than expected by chance. Then we used principal-component analysis and multivariate analysis of variance to test for the relative contribution of each factor in explaining the variation in fungal community composition. Finally, we used redundancy analysis to identify the soil properties that significantly explained the differences in AMF communities across soil types. The results pointed out a tendency of AMF communities in roots to be closely related and different from those in the rhizosphere soil. The indicator species analyses revealed AMF associated with rhizosphere soil and the root habitat. Soil type also determined the distribution of AMF communities in soils, and this effect could not be attributed to a single soil characteristic, as at least three soil properties related to microbial activity, i.e., pH and levels of two micronutrients (Mn and Zn), played significant roles in triggering AMF populations. IMPORTANCE Communities of arbuscular mycorrhizal fungi (AMF) are main components of soil biota that can determine the productivity of ecosystems. These fungal assemblages vary across host plants and ecosystems, but the main ecological processes that shape the structures of these communities are still largely unknown. A field study in six different soil types from semiarid areas revealed that AMF communities are significantly influenced by habitat (soil versus roots) and soil type. In addition, three soil properties related to microbiological activity (i.e., pH and manganese and zinc levels

Ecological and human health risks associated with abandoned gold mine tailings contaminated soil

DEFF Research Database (Denmark)

Ngole-Jeme, Veronica Mpode; Fantke, Peter

2017-01-01

of arsenic (As), cadmium (Cd), chromium (Cr), cobalt (Co), copper (Cu), lead (Pb), manganese (Mn), nickel (Ni), and zinc (Zn) in soil samples from the area varied with the highest contamination factors (expressed as ratio of metal or metalloid concentration in the tailings contaminated soil......Gold mining is a major source of metal and metalloid emissions into the environment. Studies were carried out in Krugersdorp, South Africa, to evaluate the ecological and human health risks associated with exposure to metals and metalloids in mine tailings contaminated soils. Concentrations......×10−2 for As and Ni respectively among children, and 5×10−3 and 4×10−3 for As and Ni respectively among adults. There is significant potential ecological and human health risk associated with metal and metalloid exposure from contaminated soils around gold mine tailings dumps. This could be a potential contributing...

Association of soil arsenic and nickel exposure with cancer mortality rates, a town-scale ecological study in Suzhou, China.

Science.gov (United States)

Chen, Kai; Liao, Qi Lin; Ma, Zong Wei; Jin, Yang; Hua, Ming; Bi, Jun; Huang, Lei

2015-04-01

Heavy metals and arsenic are well-known carcinogens. However, few studies have examined whether soil heavy metals and arsenic concentrations associate with cancer in the general population. In this ecological study, we aimed to evaluate the association of heavy metals and arsenic in soil with cancer mortality rates during 2005-2010 in Suzhou, China, after controlling for education and smoking prevalence. In 2005, a total of 1683 soil samples with a sampling density of one sample every 4 km(2) were analyzed. Generalized linear model with a quasi-Poisson regression was applied to evaluate the association between town-scale cancer mortality rates and soil heavy metal concentrations. Results showed that soil arsenic exposure had a significant relationship with colon, gastric, kidney, lung, and nasopharyngeal cancer mortality rates and soil nickel exposure was significantly associated with liver and lung cancer. The associations of soil arsenic and nickel exposure with colon, gastric, kidney, and liver cancer in male were higher than those in female. The observed associations of soil arsenic and nickel with cancer mortality rates were less sensitive to alternative exposure metrics. Our findings would contribute to the understanding of the carcinogenic effect of soil arsenic and nickel exposure in general population.

Soil Characterization by Large Scale Sampling of Soil Mixed with Buried Construction Debris at a Former Uranium Fuel Fabrication Facility

International Nuclear Information System (INIS)

Nardi, A.J.; Lamantia, L.

2009-01-01

Recent soil excavation activities on a site identified the presence of buried uranium contaminated building construction debris. The site previously was the location of a low enriched uranium fuel fabrication facility. This resulted in the collection of excavated materials from the two locations where contaminated subsurface debris was identified. The excavated material was temporarily stored in two piles on the site until a determination could be made as to the appropriate disposition of the material. Characterization of the excavated material was undertaken in a manner that involved the collection of large scale samples of the excavated material in 1 cubic meter Super Sacks. Twenty bags were filled with excavated material that consisted of the mixture of both the construction debris and the associated soil. In order to obtain information on the level of activity associated with the construction debris, ten additional bags were filled with construction debris that had been separated, to the extent possible, from the associated soil. Radiological surveys were conducted of the resulting bags of collected materials and the soil associated with the waste mixture. The 30 large samples, collected as bags, were counted using an In-Situ Object Counting System (ISOCS) unit to determine the average concentration of U-235 present in each bag. The soil fraction was sampled by the collection of 40 samples of soil for analysis in an on-site laboratory. A fraction of these samples were also sent to an off-site laboratory for additional analysis. This project provided the necessary soil characterization information to allow consideration of alternate options for disposition of the material. The identified contaminant was verified to be low enriched uranium. Concentrations of uranium in the waste were found to be lower than the calculated site specific derived concentration guideline levels (DCGLs) but higher than the NRC's screening values. The methods and results are presented

Association of radionuclides with different molecular size fractions in soil solution: implications for plant uptake

International Nuclear Information System (INIS)

Nisbet, A.F.; Shaw, S.; Salbu, B.

1993-01-01

The feasibility of using hollow fibre ultrafiltration to determine the molecular size distribution of radionuclides in soil solution was investigated. The physical and chemical composition of soil plays a vital role in determining radionuclide uptake by plant roots. Soil solution samples were extracted from loam, peat and sand soils that had been artificially contaminated with 137 Cs, 90 Sr, 239 Pu and 241 Am six years previously as part of a five-year lysimeter study on radionuclide uptake to crops. Ultrafiltration of soil solution was performed using hollow fibre cartridges with a nominal molecular weight cut off of 3 and 10 kD. The association of 137 Cs, 90 Sr, 239 Pu and 241 Am with different molecular size fractions of the soil solution is discussed in terms of radionuclide bioavailability to cabbage grown in the same three soils. 137 Cs and 90 Sr were present in low molecular weight forms and as such were mobile in soil and potentially available for uptake by the cabbage. In contrast, a large proportion (61-87%) of the 239 Pu and 241 Am were associated with colloidal and high molecular weight material and therefore less available for uptake by plant roots. The contribution from low molecular weight species of 239 Pu and 241 Am to the total activity in soil solution decreased in the order loam ≥ peat ≥ sand. Association of radionuclides with low molecular weight species of less than 3 kD did not, however, automatically imply availability to plants. (author)

Are different soil metals near the homes of pregnant women associated with mild and severe intellectual disability in children?

Science.gov (United States)

MCDERMOTT, SUZANNE; BAO, WEICHAO; TONG, XIN; CAI, BO; LAWSON, ANDREW; AELION, CMARJORIE

2014-01-01

AIM We explored the association of relatively low concentrations of metals in the soil proximal to maternal residence during pregnancy, with intellectual disability. We hypothesized different metals would be associated with mild versus severe intellectual disability. METHOD We used a mixed methods design, starting with a retrospective cohort from 1996–2002, of 10 051 pregnant mothers, soil sampling in the areas where these mothers resided during pregnancy, and follow-up of their children to determine if there was an intellectual disability outcome. We tested the soil and then predicted the soil concentration at the maternal homes, and modeled the association with the severity of the child’s intellectual disability. RESULTS We found a significant positive association between mild intellectual disability and soil mercury (p=0.007). For severe intellectual disability, there was a significant positive association with the soil arsenic and lead (p=0.025). INTERPRETATION This is the first report of the differential impact of metals in soil and severity of intellectual disability in children. Soil mercury concentration in the area the mother lived during pregnancy is associated with significantly increased odds of mild intellectual disability; a combination of arsenic and lead is associated with significantly increased odds of severe intellectual disability. These associations are present when controlling for maternal, child, and neighborhood characteristics. PMID:24750016

Potential bioactivity and association of 17β-estradiol with the dissolved and colloidal fractions of manure and soil

International Nuclear Information System (INIS)

Chambers, Katrin B.; Casey, Francis X.M.; Hakk, Heldur; DeSutter, Thomas M.; Shappell, Nancy W.

2014-01-01

The dissolved (DF) and colloidal fractions (CF) of soil and manure play an important role in the environmental fate and transport of steroidal estrogens. The first objective of this study was to quantify the association of 17β-estradiol (E2) with the DF and CF isolated from (i) liquid swine manure (LSM), (ii) a soil:water mixture (soil), and (iii) a LSM:soil:water mixture (Soil + LSM). The appropriate CF and DF size fractions of the Soil, Soil + LSM, and LSM media were obtained by first filtering through a 0.45 μm filter, which provided the combined DF and CF (DF/CF). The DF/CF from the three media was spiked with carbon-14 ([ 14 C]) radiolabeled E2 ([ 14 C]-E2), and then ultrafiltered to isolate the CF (< 0.45 μm and > 1 kDa) from the DF (< 1 kDa). The average recoveries of the [ 14 C] associated with the DF were 67%–72%, 67%–79%, and 76%–78% for the Soil, Soil + LSM and LSM, respectively. For the CF that was retained on the 1 kDa filter, organic carbon and [ 14 C]-E2 were dislodged with subsequent water rinses the Soil + LSM and LSM, but not the Soil. The second objective was to evaluate whether the E2 associated with the various fractions of the different media could still bind the estrogen receptor using an E2 receptor (17β-ER) competitor assay, which allowed E2 equivalent concentrations to be determined. The estrogen receptor assay results indicated that E2 present in the DF of the Soil and Soil + LSM solutions could still bind the estrogen receptor. Results from this study indicated that E2 preferentially associated with the DF of soil and manure, which may enhance its dissolved advective transport in surface and subsurface water. Furthermore, this study indicated that E2 associated with DF solutions in the environment could potentially induce endocrine responses through its interactions with estrogen receptor. - Highlights: • Dissolved and colloidal sized fractions were filtered from swine manure and soil. • Estrogen preferred the dissolved

Genome-wide association study identifies variants in HORMAD2 associated with tonsillectomy

DEFF Research Database (Denmark)

Feenstra, Bjarke; Bager, Peter; Liu, Xueping

2017-01-01

BACKGROUND: Inflammation of the tonsils is a normal response to infection, but some individuals experience recurrent, severe tonsillitis and massive hypertrophy of the tonsils in which case surgical removal of the tonsils may be considered. OBJECTIVE: To identify common genetic variants associate...... the molecular mechanisms underlying the genetic association involve general lymphoid hyper-reaction throughout the mucosa-associated lymphoid tissue system.......BACKGROUND: Inflammation of the tonsils is a normal response to infection, but some individuals experience recurrent, severe tonsillitis and massive hypertrophy of the tonsils in which case surgical removal of the tonsils may be considered. OBJECTIVE: To identify common genetic variants associated...... with tonsillectomy. METHODS: We used tonsillectomy information from Danish health registers and carried out a genome-wide association study comprising 1464 patients and 12 019 controls of Northwestern European ancestry, with replication in an independent sample set of 1575 patients and 1367 controls. RESULTS...

Genome-wide association study identifies variants associated with autoimmune hepatitis type 1.

Science.gov (United States)

de Boer, Ynto S; van Gerven, Nicole M F; Zwiers, Antonie; Verwer, Bart J; van Hoek, Bart; van Erpecum, Karel J; Beuers, Ulrich; van Buuren, Henk R; Drenth, Joost P H; den Ouden, Jannie W; Verdonk, Robert C; Koek, Ger H; Brouwer, Johannes T; Guichelaar, Maureen M J; Vrolijk, Jan M; Kraal, Georg; Mulder, Chris J J; van Nieuwkerk, Carin M J; Fischer, Janett; Berg, Thomas; Stickel, Felix; Sarrazin, Christoph; Schramm, Christoph; Lohse, Ansgar W; Weiler-Normann, Christina; Lerch, Markus M; Nauck, Matthias; Völzke, Henry; Homuth, Georg; Bloemena, Elisabeth; Verspaget, Hein W; Kumar, Vinod; Zhernakova, Alexandra; Wijmenga, Cisca; Franke, Lude; Bouma, Gerd

2014-08-01

Autoimmune hepatitis (AIH) is an uncommon autoimmune liver disease of unknown etiology. We used a genome-wide approach to identify genetic variants that predispose individuals to AIH. We performed a genome-wide association study of 649 adults in The Netherlands with AIH type 1 and 13,436 controls. Initial associations were further analyzed in an independent replication panel comprising 451 patients with AIH type 1 in Germany and 4103 controls. We also performed an association analysis in the discovery cohort using imputed genotypes of the major histocompatibility complex region. We associated AIH with a variant in the major histocompatibility complex region at rs2187668 (P = 1.5 × 10(-78)). Analysis of this variant in the discovery cohort identified HLA-DRB1*0301 (P = 5.3 × 10(-49)) as a primary susceptibility genotype and HLA-DRB1*0401 (P = 2.8 × 10(-18)) as a secondary susceptibility genotype. We also associated AIH with variants of SH2B3 (rs3184504, 12q24; P = 7.7 × 10(-8)) and CARD10 (rs6000782, 22q13.1; P = 3.0 × 10(-6)). In addition, strong inflation of association signal was found with single-nucleotide polymorphisms associated with other immune-mediated diseases, including primary sclerosing cholangitis and primary biliary cirrhosis, but not with single-nucleotide polymorphisms associated with other genetic traits. In a genome-wide association study, we associated AIH type 1 with variants in the major histocompatibility complex region, and identified variants of SH2B3and CARD10 as likely risk factors. These findings support a complex genetic basis for AIH pathogenesis and indicate that part of the genetic susceptibility overlaps with that for other immune-mediated liver diseases. Copyright © 2014 AGA Institute. Published by Elsevier Inc. All rights reserved.

Intestinal parasites in children and soil from Turbaco, Colombia and associated risk factors.

Science.gov (United States)

Villafañe-Ferrer, Lucy M; Pinilla-Pérez, Mavianis

2016-02-01

Objective To determine the frequency of intestinal parasites in children and soil from Turbaco- Colombia and associated risks factors. Methods Analytical study in which 390 children between 2 and 12 years old from 10 neighborhoods of Turbaco were included, whose legal representatives gave informed consent. Three serial samples of feces and 10 soil samples were processed. Risk factors were determined through an interview. Physicochemical and structural characteristics of soils were also evaluated. Results Parasites were found in 30.5 % of children. 162 parasites were observed; the most frequent protozoan was Endolimax nana (30.3 %) and in terms of helminthes, the most frequent was Ascaris lumbricoides (4.9 %). No statistical association between age or sex and intestinal parasites (p>0.05) or between risk factors and intestinal parasites (p>0.05) was found. Low frequencies of intestinal parasites were encountered in soil samples, being more common Entamoeba spp., Giardia spp., and Ascaris lumbricoides. Neighborhoods of Turbaco had sandy dry soil with low content of ions, low conductivity and low organic matter. Conclusion This study showed a low frequency of intestinal parasites in feces and soils. Despite this, pathogenic parasites were found which can affect the health of the population. Besides this, a high percentage of intestinal parasites that are transmitted through feces were detected indicating fecal contamination and low level of hygiene.

Competition assays and physiological experiments of soil and phyllosphere yeasts identify Candida subhashii as a novel antagonist of filamentous fungi.

Science.gov (United States)

Hilber-Bodmer, Maja; Schmid, Michael; Ahrens, Christian H; Freimoser, Florian M

2017-01-05

While recent advances in next generation sequencing technologies have enabled researchers to readily identify countless microbial species in soil, rhizosphere, and phyllosphere microbiomes, the biological functions of the majority of these species are unknown. Functional studies are therefore urgently needed in order to characterize the plethora of microorganisms that are being identified and to point out species that may be used for biotechnology or plant protection. Here, we used a dual culture assay and growth analyses to characterise yeasts (40 different isolates) and their antagonistic effect on 16 filamentous fungi; comprising plant pathogens, antagonists, and saprophytes. Overall, this competition screen of 640 pairwise combinations revealed a broad range of outcomes, ranging from small stimulatory effects of some yeasts up to a growth inhibition of more than 80% by individual species. On average, yeasts isolated from soil suppressed filamentous fungi more strongly than phyllosphere yeasts and the antagonistic activity was a species-/isolate-specific property and not dependent on the filamentous fungus a yeast was interacting with. The isolates with the strongest antagonistic activity were Metschnikowia pulcherrima, Hanseniaspora sp., Cyberlindnera sargentensis, Aureobasidium pullulans, Candida subhashii, and Pichia kluyveri. Among these, the soil yeasts (C. sargentensis, A. pullulans, C. subhashii) assimilated and/or oxidized more di-, tri- and tetrasaccharides and organic acids than yeasts from the phyllosphere. Only the two yeasts C. subhashii and M. pulcherrima were able to grow with N-acetyl-glucosamine as carbon source. The competition assays and physiological experiments described here identified known antagonists that have been implicated in the biological control of plant pathogenic fungi in the past, but also little characterised species such as C. subhashii. Overall, soil yeasts were more antagonistic and metabolically versatile than yeasts from

Using ensemble models to identify and apportion heavy metal pollution sources in agricultural soils on a local scale.

Science.gov (United States)

Wang, Qi; Xie, Zhiyi; Li, Fangbai

2015-11-01

This study aims to identify and apportion multi-source and multi-phase heavy metal pollution from natural and anthropogenic inputs using ensemble models that include stochastic gradient boosting (SGB) and random forest (RF) in agricultural soils on the local scale. The heavy metal pollution sources were quantitatively assessed, and the results illustrated the suitability of the ensemble models for the assessment of multi-source and multi-phase heavy metal pollution in agricultural soils on the local scale. The results of SGB and RF consistently demonstrated that anthropogenic sources contributed the most to the concentrations of Pb and Cd in agricultural soils in the study region and that SGB performed better than RF. Copyright © 2015 Elsevier Ltd. All rights reserved.

Deep horizons: Soil Carbon sequestration and storage potential in grassland soils

Science.gov (United States)

Torres-Sallan, Gemma; Schulte, Rogier; Lanigan, Gary J.; Byrne, Kenneth A.; Reidy, Brian; Creamer, Rachel

2016-04-01

Soil Organic Carbon (SOC) enhances soil fertility, holding nutrients in a plant-available form. It also improves aeration and water infiltration. Soils are considered a vital pool for C (Carbon) sequestration, as they are the largest pool of C after the oceans, and contain 3.5 more C than the atmosphere. SOC models and inventories tend to focus on the top 30 cm of soils, only analysing total SOC values. Association of C with microaggregates (53-250 μm) and silt and clay (40 °C. Through a wet sieving procedure, four aggregate sizes were isolated: large macroaggregates (>2000 μm); macroaggregates (250-2000 μm); microaggregates and silt & clay. Organic C associated to each aggregate fraction was analysed on a LECO combustion analyser. Sand-free C was calculated for each aggregate size. For all soil types, 84% of the SOC located in the first 30 cm was contained inside macroaggregates and large macroaggregates. Given that this fraction has a turnover time of 1 to 10 years, sampling at that depth only provides information on the labile fraction in soil, and does not consider the longer term C sequestration potential. Only when looking at the whole profile, two clear trends could be observed: 1) soils with a clay increase at depth had most of their C located in the silt and clay fractions, which indicate their enhanced C sequestration capacity, 2) free-draining soils had a bigger part of their SOC located in the macroaggregate fractions. These results indicate that current C inventories and models that focus on the top 30 cm, do not accurately measure soil C sequestration potential in soils, but rather the more labile fraction. However, at depth soil forming processes have been identified as a major factor influencing C sequestration potential in soils. This has a major impact in further quantifying and sustaining C sequestration into the future. Soils with a high sequestration potential at depth need to be managed to enhance the residence time to contribute to future

Control of some important soil-borne fungi by chitin associated with chilli (capsicum annuum l.) in lower sindh, pakistan

International Nuclear Information System (INIS)

Hussain, F.; Abid, M.; Farzana, A.; Akbar, M.; Shaukat, S.S.

2013-01-01

Chilli (Capsicum annuum L.) belongs to the family Solanaceae is one of the most important cash crop of the southern parts of Pakistan. Capsicum is cultivated on a large scale in a lower region of Sindh, Pakistan. It is an important and profitable crop of Pakistan. Several biotic and abiotic stresses affect the productivity of chilli crop. It is infected by a number of diseases particularly soil-borne diseases. Surveys of soil-borne fungal diseases associated with chilli crop in different areas of lower Sindh, including, Hyderabad, Tando Allahyar, Mirpurkhas, Umerkot, Kunri, Samaro, Kot Ghulam uhammad and Digri, were conducted, and chilli plants showing symptoms of wilting were collected. A number of soil-borne root infecting fungi were isolated and identified, such as, Fusarium oxysporum, F. solani, Macrophomina phaseolina, Phytophthora capsici, Pythium sp., and Rhizoctonia solani, from collected disease plants. It was observed that all the major varieties of chillies (i.e., Sanam, Talhari, Ghotaki, Mexi), growing in lower Sindh, were highly susceptible to these fungi. The main objectives of the study were to examine the effectiveness of chitin for the management of soil-borne diseases of chilli plant by different methods, i.e., soil amendment and transplant root dip method. Results indicated that of the two methods, the soil amendment method was more effective while transplant root dip method was less effective. (author)

Soil Organic Matter Stabilization via Mineral Interactions in Forest Soils with Varying Saturation Frequency

Science.gov (United States)

Possinger, A. R.; Inagaki, T.; Bailey, S. W.; Kogel-Knabner, I.; Lehmann, J.

2017-12-01

Soil carbon (C) interaction with minerals and metals through surface adsorption and co-precipitation processes is important for soil organic C (SOC) stabilization. Co-precipitation (i.e., the incorporation of C as an "impurity" in metal precipitates as they form) may increase the potential quantity of mineral-associated C per unit mineral surface compared to surface adsorption: a potentially important and as yet unaccounted for mechanism of C stabilization in soil. However, chemical, physical, and biological characterization of co-precipitated SOM as such in natural soils is limited, and the relative persistence of co-precipitated C is unknown, particularly under dynamic environmental conditions. To better understand the relationships between SOM stabilization via organometallic co-precipitation and environmental variables, this study compares mineral-SOM characteristics across a forest soil (Spodosol) hydrological gradient with expected differences in co-precipitation of SOM with iron (Fe) and aluminum (Al) due to variable saturation frequency. Soils were collected from a steep, well-drained forest soil transect with low, medium, and high frequency of water table intrusion into surface soils (Hubbard Brook Experimental Forest, Woodstock, NH). Lower saturation frequency soils generally had higher C content, C/Fe, C/Al, and other indicators of co-precipitation interactions resulting from SOM complexation, transport, and precipitation, an important process of Spodosol formation. Preliminary Fe X-ray Absorption Spectroscopic (XAS) characterization of SOM and metal chemistry in low frequency profiles suggest co-precipitation of SOM in the fine fraction (soils showed greater SOC mineralization per unit soil C for low saturation frequency (i.e., higher co-precipitation) soils; however, increased mineralization may be attributed to non-mineral associated fractions of SOM. Further work to identify the component of SOM contributing to rapid mineralization using 13C

Distinct roles for soil fungal and bacterial communities associated with the suppression of vanilla Fusarium wilt disease

NARCIS (Netherlands)

Xiong, Wu; Li, Rong; Ren, Yi; Liu, Chen; Zhao, Qingyun; Wu, Huasong; Jousset, Alexandre; Shen, Qirong

2017-01-01

Characterizing microbial communities associated with disease-suppressive soil is an important first step toward understanding the potential of microbiota to protect crops against plant pathogens. In the present study, we compared microbial communities in suppressive- and conducive-soils associated

To Identify the Important Soil Properties Affecting Dinoseb Adsorption with Statistical Analysis

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Yiqing Guan

2013-01-01

Full Text Available Investigating the influences of soil characteristic factors on dinoseb adsorption parameter with different statistical methods would be valuable to explicitly figure out the extent of these influences. The correlation coefficients and the direct, indirect effects of soil characteristic factors on dinoseb adsorption parameter were analyzed through bivariate correlation analysis, and path analysis. With stepwise regression analysis the factors which had little influence on the adsorption parameter were excluded. Results indicate that pH and CEC had moderate relationship and lower direct effect on dinoseb adsorption parameter due to the multicollinearity with other soil factors, and organic carbon and clay contents were found to be the most significant soil factors which affect the dinoseb adsorption process. A regression is thereby set up to explore the relationship between the dinoseb adsorption parameter and the two soil factors: the soil organic carbon and clay contents. A 92% of the variation of dinoseb sorption coefficient could be attributed to the variation of the soil organic carbon and clay contents.

Effects of surface soil loss in South Eastern Nigeria: I. crop ...

African Journals Online (AJOL)

The widespread incidence of soil erosion in the tropics has been identified, though few studies have dealt with specific problems of decline in crop productivity associated with soil loss. An understanding of the influence of surface soil loss on crop yield is necessary in order to find out their effects on performance of crops.

Genome-wide association study identifies 74 loci associated with educational attainment

Science.gov (United States)

Okbay, Aysu; Beauchamp, Jonathan P.; Fontana, Mark A.; Lee, James J.; Pers, Tune H.; Rietveld, Cornelius A.; Turley, Patrick; Chen, Guo-Bo; Emilsson, Valur; Meddens, S. Fleur W.; Oskarsson, Sven; Pickrell, Joseph K.; Thom, Kevin; Timshel, Pascal; de Vlaming, Ronald; Abdellaoui, Abdel; Ahluwalia, Tarunveer S.; Bacelis, Jonas; Baumbach, Clemens; Bjornsdottir, Gyda; Brandsma, Johannes H.; Concas, Maria Pina; Derringer, Jaime; Furlotte, Nicholas A.; Galesloot, Tessel E.; Girotto, Giorgia; Gupta, Richa; Hall, Leanne M.; Harris, Sarah E.; Hofer, Edith; Horikoshi, Momoko; Huffman, Jennifer E.; Kaasik, Kadri; Kalafati, Ioanna P.; Karlsson, Robert; Kong, Augustine; Lahti, Jari; van der Lee, Sven J.; de Leeuw, Christiaan; Lind, Penelope A.; Lindgren, Karl-Oskar; Liu, Tian; Mangino, Massimo; Marten, Jonathan; Mihailov, Evelin; Miller, Michael B.; van der Most, Peter J.; Oldmeadow, Christopher; Payton, Antony; Pervjakova, Natalia; Peyrot, Wouter J.; Qian, Yong; Raitakari, Olli; Rueedi, Rico; Salvi, Erika; Schmidt, Börge; Schraut, Katharina E.; Shi, Jianxin; Smith, Albert V.; Poot, Raymond A.; Pourcain, Beate; Teumer, Alexander; Thorleifsson, Gudmar; Verweij, Niek; Vuckovic, Dragana; Wellmann, Juergen; Westra, Harm-Jan; Yang, Jingyun; Zhao, Wei; Zhu, Zhihong; Alizadeh, Behrooz Z.; Amin, Najaf; Bakshi, Andrew; Baumeister, Sebastian E.; Biino, Ginevra; Bønnelykke, Klaus; Boyle, Patricia A.; Campbell, Harry; Cappuccio, Francesco P.; Davies, Gail; De Neve, Jan-Emmanuel; Deloukas, Panos; Demuth, Ilja; Ding, Jun; Eibich, Peter; Eisele, Lewin; Eklund, Niina; Evans68, David M.; Faul, Jessica D.; Feitosa, Mary F.; Forstner, Andreas J.; Gandin, Ilaria; Gunnarsson, Bjarni; Halldórsson, Bjarni V.; Harris, Tamara B.; Heath, Andrew C.; Hocking, Lynne J.; Holliday, Elizabeth G.; Homuth, Georg; Horan, Michael A.; Hottenga, Jouke-Jan; de Jager, Philip L.; Joshi, Peter K.; Jugessur, Astanand; Kaakinen, Marika A.; Kähönen, Mika; Kanoni, Stavroula; Keltigangas-Järvinen, Liisa; Kiemeney, Lambertus A.L.M.; Kolcic, Ivana; Koskinen, Seppo; Kraja, Aldi T.; Kroh, Martin; Kutalik, Zoltan; Latvala, Antti; Launer, Lenore J.; Lebreton, Maël P.; Levinson, Douglas F.; Lichtenstein, Paul; Lichtner, Peter; Liewald, David C.M.; Loukola, Anu; Madden, Pamela A.; Mägi, Reedik; Mäki-Opas, Tomi; Marioni, Riccardo E.; Marques-Vidal, Pedro; Meddens, Gerardus A.; McMahon, George; Meisinger, Christa; Meitinger, Thomas; Milaneschi, Yusplitri; Milani, Lili; Montgomery, Grant W.; Myhre, Ronny; Nelson, Christopher P.; Nyholt, Dale R.; Ollier, William E.R.; Palotie, Aarno; Paternoster, Lavinia; Pedersen, Nancy L.; Petrovic, Katja E.; Porteous, David J.; Räikkönen, Katri; Ring, Susan M.; Robino, Antonietta; Rostapshova, Olga; Rudan, Igor; Rustichini, Aldo; Salomaa, Veikko; Sanders, Alan R.; Sarin, Antti-Pekka; Schmidt, Helena; Scott, Rodney J.; Smith, Blair H.; Smith, Jennifer A.; Staessen, Jan A.; Steinhagen-Thiessen, Elisabeth; Strauch, Konstantin; Terracciano, Antonio; Tobin, Martin D.; Ulivi, Sheila; Vaccargiu, Simona; Quaye, Lydia; van Rooij, Frank J.A.; Venturini, Cristina; Vinkhuyzen, Anna A.E.; Völker, Uwe; Völzke, Henry; Vonk, Judith M.; Vozzi, Diego; Waage, Johannes; Ware, Erin B.; Willemsen, Gonneke; Attia, John R.; Bennett, David A.; Berger, Klaus; Bertram, Lars; Bisgaard, Hans; Boomsma, Dorret I.; Borecki, Ingrid B.; Bultmann, Ute; Chabris, Christopher F.; Cucca, Francesco; Cusi, Daniele; Deary, Ian J.; Dedoussis, George V.; van Duijn, Cornelia M.; Eriksson, Johan G.; Franke, Barbara; Franke, Lude; Gasparini, Paolo; Gejman, Pablo V.; Gieger, Christian; Grabe, Hans-Jörgen; Gratten, Jacob; Groenen, Patrick J.F.; Gudnason, Vilmundur; van der Harst, Pim; Hayward, Caroline; Hinds, David A.; Hoffmann, Wolfgang; Hyppönen, Elina; Iacono, William G.; Jacobsson, Bo; Järvelin, Marjo-Riitta; Jöckel, Karl-Heinz; Kaprio, Jaakko; Kardia, Sharon L.R.; Lehtimäki, Terho; Lehrer, Steven F.; Magnusson, Patrik K.E.; Martin, Nicholas G.; McGue, Matt; Metspalu, Andres; Pendleton, Neil; Penninx, Brenda W.J.H.; Perola, Markus; Pirastu, Nicola; Pirastu, Mario; Polasek, Ozren; Posthuma, Danielle; Power, Christine; Province, Michael A.; Samani, Nilesh J.; Schlessinger, David; Schmidt, Reinhold; Sørensen, Thorkild I.A.; Spector, Tim D.; Stefansson, Kari; Thorsteinsdottir, Unnur; Thurik, A. Roy; Timpson, Nicholas J.; Tiemeier, Henning; Tung, Joyce Y.; Uitterlinden, André G.; Vitart, Veronique; Vollenweider, Peter; Weir, David R.; Wilson, James F.; Wright, Alan F.; Conley, Dalton C.; Krueger, Robert F.; Smith, George Davey; Hofman, Albert; Laibson, David I.; Medland, Sarah E.; Meyer, Michelle N.; Yang, Jian; Johannesson, Magnus; Visscher, Peter M.; Esko, Tõnu; Koellinger, Philipp D.; Cesarini, David; Benjamin, Daniel J.

2016-01-01

Summary Educational attainment (EA) is strongly influenced by social and other environmental factors, but genetic factors are also estimated to account for at least 20% of the variation across individuals1. We report the results of a genome-wide association study (GWAS) for EA that extends our earlier discovery sample1,2 of 101,069 individuals to 293,723 individuals, and a replication in an independent sample of 111,349 individuals from the UK Biobank. We now identify 74 genome-wide significant loci associated with number of years of schooling completed. Single-nucleotide polymorphisms (SNPs) associated with educational attainment are disproportionately found in genomic regions regulating gene expression in the fetal brain. Candidate genes are preferentially expressed in neural tissue, especially during the prenatal period, and enriched for biological pathways involved in neural development. Our findings demonstrate that, even for a behavioral phenotype that is mostly environmentally determined, a well-powered GWAS identifies replicable associated genetic variants that suggest biologically relevant pathways. Because EA is measured in large numbers of individuals, it will continue to be useful as a proxy phenotype in efforts to characterize the genetic influences of related phenotypes, including cognition and neuropsychiatric disease. PMID:27225129

Who's on first? Part I: Influence of plant growth on C association with fresh soil minerals

Science.gov (United States)

Neurath, R.; Whitman, T.; Nico, P. S.; Pett-Ridge, J.; Firestone, M. K.

2015-12-01

Mineral surfaces provide sites for carbon stabilization in soils, protecting soil organic matter (SOM) from microbial degradation. SOM distributed across mineral surfaces is expected to be patchy and certain minerals undergo re-mineralization under dynamic soil conditions, such that soil minerals surfaces can range from fresh to thickly-coated with SOM. Our research investigates the intersection of microbiology and geochemistry, and aims to build a mechanistic understanding of plant-derived carbon (C) association with mineral surfaces and the factors that determine SOM fate in soil. Plants are the primary source of C in soil, with roots exuding low-molecular weight compounds during growth and contributing more complex litter compounds at senescence. We grew the annual grass, Avena barbata, (wild oat) in a 99 atom% 13CO2 atmosphere in soil microcosms incubated with three mineral types representing a spectrum of reactivity and surface area: quartz, kaolinite, and ferrihydrite. These minerals, isolated in mesh bags to exclude roots but not microorganisms, were extracted and analyzed for total C and 13C at multiple plant growth stages. At plant senescence, the quartz had the least mineral-bound C (0.40 mg-g-1) and ferrihydrite the most (0.78 mg-g-1). Ferrihydrite and kaolinite also accumulated more plant-derived C (3.0 and 3.1% 13C, respectively). The experiment was repeated with partially digested 13C-labled root litter to simulate litter decomposition during plant senescence. Thus, we are able evaluate contributions derived from living and dead root materials on soil minerals using FTIR and 13C-NMR. We find that mineral-associated C bears a distinct microbial signature, with soil microbes not only transforming SOM prior to mineral association, but also populating mineral surfaces over time. Our research shows that both soil mineralogy and the chemical character of plant-derived compounds are important controls of mineral protection of SOM.

Microbial activity of soil with sulfentrazone associated with phytoremediator species and inoculation with a bacterial consortium

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Christiane Augusta Diniz Melo

Full Text Available ABSTRACT Phytostimulation plays a key role in the process of rhizodegradation of herbicides in soil. Additionally, bio-enhancement associated with phytoremediation may increase the efficiency of the decontamination process of soils with herbicides. Therefore, the objective of this study was to evaluate the biomass and microbial activity of soil contaminated with sulfentrazone and cultivated with phytoremediator species plus a bacterial consortium. The experiment was conducted in a greenhouse, carried out with a 2 × 4 × 4 completely randomized factorial design with 4 replications. The first factor consisted of the presence or absence of bio-enhancement with a bacterial consortium composed of Pseudomonas bacteria; the second factor consisted of a monoculture or mixed cultivation of 2 phytoremediator species Canavalia ensiformis and Helianthus annuus, besides the absence of cultivation; the third factor was made up by the bio-remediation time (25, 45, 65, and 85 days after thinning. Uncultivated soils displayed low values of microbial biomass carbon and microbial quotient as well as high values of metabolic quotient throughout the bio-remediation time, indicating the importance of cultivating phytoremediator species for the stimulation of soil microbiota. Bio-enhancement with the bacterial consortium, in general, promoted an increase in the microbial biomass and activity of soil contaminated with sulfentrazone. In the presence of the bacterial consortium, Canavalia ensiformis stimulated a greater activity of associated microbiota and supported a higher microbial biomass. Phytoremediation associated with microbial bio-enhancement are thus promising techniques for the bio-remediation for soils contaminated with sulfentrazone. This technique enhances the biomass and activity of soil microorganisms.

Long-term Fertilization Structures Bacterial and Archaeal Communities along Soil Depth Gradient in a Paddy Soil

Directory of Open Access Journals (Sweden)

Yunfu Gu

2017-08-01

Full Text Available Soil microbes provide important ecosystem services. Though the effects of changes in nutrient availability due to fertilization on the soil microbial communities in the topsoil (tilled layer, 0–20 cm have been extensively explored, the effects on communities and their associations with soil nutrients in the subsoil (below 20 cm which is rarely impacted by tillage are still unclear. 16S rRNA gene amplicon sequencing was used to investigate bacterial and archaeal communities in a Pup-Calric-Entisol soil treated for 32 years with chemical fertilizer (CF and CF combined with farmyard manure (CFM, and to reveal links between soil properties and specific bacterial and archaeal taxa in both the top- and subsoil. The results showed that both CF and CFM treatments increased soil organic carbon (SOC, soil moisture (MO and total nitrogen (TN while decreased the nitrate_N content through the profile. Fertilizer applications also increased Olsen phosphorus (OP content in most soil layers. Microbial communities in the topsoil were significantly different from those in subsoil. Compared to the CF treatment, taxa such as Nitrososphaera, Nitrospira, and several members of Acidobacteria in topsoil and Subdivision 3 genera incertae sedis, Leptolinea, and Bellilinea in subsoil were substantially more abundant in CFM. A co-occurrence based network analysis demonstrated that SOC and OP were the most important soil parameters that positively correlated with specific bacterial and archaeal taxa in topsoil and subsoil, respectively. Hydrogenophaga was identified as the keystone genus in the topsoil, while genera Phenylobacterium and Steroidobacter were identified as the keystone taxa in subsoil. The taxa identified above are involved in the decomposition of complex organic compounds and soil carbon, nitrogen, and phosphorus transformations. This study revealed that the spatial variability of soil properties due to long-term fertilization strongly shapes the bacterial

Diversity and metabolic potential of the microbiota associated with a soil arthropod.

Science.gov (United States)

Bahrndorff, Simon; de Jonge, Nadieh; Hansen, Jacob Kjerulf; Lauritzen, Jannik Mørk Skovgaard; Spanggaard, Lasse Holt; Sørensen, Mathias Hamann; Yde, Morten; Nielsen, Jeppe Lund

2018-02-06

Springtails are important members of the soil fauna and play a key role in plant litter decomposition, for example through stimulation of the microbial activity. However, their interaction with soil microorganisms remains poorly understood and it is unclear which microorganisms are associated to the springtail (endo) microbiota. Therefore, we assessed the structure of the microbiota of the springtail Orchesella cincta (L.) using 16S rRNA gene amplicon sequencing. Individuals were sampled across sites in the field and the microbiota and in particular the endomicrobiota were investigated. The microbiota was dominated by the families of Rickettsiaceae, Enterobacteriaceae and Comamonadaceae and at the genus level the most abundant genera included Rickettsia, Chryseobacterium, Pseudomonas, and Stenotrophomonas. Microbial communities were distinct for the interior of the springtails for measures of community diversity and exhibited structure according to collection sites. Functional analysis of the springtail bacterial community suggests that abundant members of the microbiota may be associated with metabolism including decomposition processes. Together these results add to the understanding of the microbiota of springtails and interaction with soil microorganisms including their putative functional roles.

The abundance of health-associated bacteria is altered in PAH polluted soils-Implications for health in urban areas?

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Anirudra Parajuli

Full Text Available Long-term exposure to polyaromatic hydrocarbons (PAHs has been connected to chronic human health disorders. It is also well-known that i PAH contamination alters soil bacterial communities, ii human microbiome is associated with environmental microbiome, and iii alteration in the abundance of members in several bacterial phyla is associated with adverse or beneficial human health effects. We hypothesized that soil pollution by PAHs altered soil bacterial communities that had known associations with human health. The rationale behind our study was to increase understanding and potentially facilitate reconsidering factors that lead to health disorders in areas characterized by PAH contamination. Large containers filled with either spruce forest soil, pine forest soil, peat, or glacial sand were left to incubate or contaminated with creosote. Biological degradation of PAHs was monitored using GC-MS, and the bacterial community composition was analyzed using 454 pyrosequencing. Proteobacteria had higher and Actinobacteria and Bacteroidetes had lower relative abundance in creosote contaminated soils than in non-contaminated soils. Earlier studies have demonstrated that an increase in the abundance of Proteobacteria and decreased abundance of the phyla Actinobacteria and Bacteroidetes are particularly associated with adverse health outcomes and immunological disorders. Therefore, we propose that pollution-induced shifts in natural soil bacterial community, like in PAH-polluted areas, can contribute to the prevalence of chronic diseases. We encourage studies that simultaneously address the classic "adverse toxin effect" paradigm and our novel "altered environmental microbiome" hypothesis.

The Use of Soil in Criminal Investigations

Science.gov (United States)

Dawson, Lorna; Fitzpatrick, Robert

2013-04-01

Forensic soil science, as a newly developed discipline of soil science, has matured to the extent that well-defined questions and successful crime scene investigations are being addressed in increasingly refined ways to assist law enforcement agencies. Soils, rocks, regolith, minerals and man-made mineral particles such as bricks (i.e. referred to "human-made" soil materials) are being used in specialised forensic investigations to associate/disassociate a sample taken from an item, such as shoes, clothing, shovel or vehicle, with a specific location. The majority of forensic cases involving soil materials are usually overwhelmingly complex, and the challenges of associating relevant information from one source with another, often requires the use and development of sophisticated field and laboratory methods. Through examples from case studies, this presentation will demonstrate how advanced field and laboratory approaches have been critical in developing coherent, predictive, soil models, from landscape to microscopic scales, to help contribute to soil-based criminal investigations in both Australia and Scotland. To demonstrate the critical importance of soil materials in forensic investigations, the following 2 case studies, which tackle difficult problems at a range of scales involving highly complex issues, will be presented: •The use of soil evidence to help solve a double murder case. This investigation used morphological, chemical, physical and mineralogical properties to identify similarities between soil-regolith found on a shovel taken from the suspect's vehicle and wetland soil-regolith subsequently located in the bottom of a quarry (Fitzpatrick and Raven, 2012). •The use of soil and related material to help search and to provide evidence in a murder case. This investigation used soil mineralogical and organic properties to identify similarities between sand found on a shovel and sand subsequently located at a beach. Results illustrate the benefit of

Association of water spectral indices with plant and soil water relations in contrasting wheat genotypes.

Science.gov (United States)

Gutierrez, Mario; Reynolds, Matthew P; Klatt, Arthur R

2010-07-01

Spectral reflectance indices can be used to estimate the water status of plants in a rapid, non-destructive manner. Water spectral indices were measured on wheat under a range of water-deficit conditions in field-based yield trials to establish their relationship with water relations parameters as well as available volumetric soil water (AVSW) to indicate soil water extraction patterns. Three types of wheat germplasm were studied which showed a range of drought adaptation; near-isomorphic sister lines from an elite/elite cross, advanced breeding lines, and lines derived from interspecific hybridization with wild relatives (synthetic derivative lines). Five water spectral indices (one water index and four normalized water indices) based on near infrared wavelengths were determined under field conditions between the booting and grain-filling stages of crop development. Among all water spectral indices, one in particular, which was denominated as NWI-3, showed the most consistent associations with water relations parameters and demonstrated the strongest associations in all three germplasm sets. NWI-3 showed a strong linear relationship (r(2) >0.6-0.8) with leaf water potential (psi(leaf)) across a broad range of values (-2.0 to -4.0 MPa) that were determined by natural variation in the environment associated with intra- and inter-seasonal affects. Association observed between NWI-3 and canopy temperature (CT) was consistent with the idea that genotypes with a better hydration status have a larger water flux (increased stomatal conductance) during the day. NWI-3 was also related to soil water potential (psi(soil)) and AVSW, indicating that drought-adapted lines could extract more water from deeper soil profiles to maintain favourable water relations. NWI-3 was sufficiently sensitive to detect genotypic differences (indicated by phenotypic and genetic correlations) in water status at the canopy and soil levels indicating its potential application in precision

A petroleum contaminated soil bioremediation facility

Energy Technology Data Exchange (ETDEWEB)

Lombard, K.; Hazen, T.

1994-06-01

The amount of petroleum contaminated soil (PCS) at the Savannah River site (SRS) that has been identified, excavated and is currently in storage has increased several fold during the last few years. Several factors have contributed to this problem: (1) South Carolina Department of Health ad Environmental control (SCDHEC) lowered the sanitary landfill maximum concentration for total petroleum hydrocarbons (TPH) in the soil from 500 to 100 parts per million (ppm), (2) removal and replacement of underground storage tanks at several sites, (3) most recently SCDHEC disallowed aeration for treatment of contaminated soil, and (4) discovery of several very large contaminated areas of soil associated with leaking underground storage tanks (LUST), leaking pipes, disposal areas, and spills. Thus, SRS has an urgent need to remediate large quantities of contaminated soil that are currently stockpiled and the anticipated contaminated soils to be generated from accidental spills. As long as we utilize petroleum based compounds at the site, we will continue to generate contaminated soil that will require remediation.

A petroleum contaminated soil bioremediation facility

International Nuclear Information System (INIS)

Lombard, K.; Hazen, T.

1994-01-01

The amount of petroleum contaminated soil (PCS) at the Savannah River site (SRS) that has been identified, excavated and is currently in storage has increased several fold during the last few years. Several factors have contributed to this problem: (1) South Carolina Department of Health ad Environmental control (SCDHEC) lowered the sanitary landfill maximum concentration for total petroleum hydrocarbons (TPH) in the soil from 500 to 100 parts per million (ppm), (2) removal and replacement of underground storage tanks at several sites, (3) most recently SCDHEC disallowed aeration for treatment of contaminated soil, and (4) discovery of several very large contaminated areas of soil associated with leaking underground storage tanks (LUST), leaking pipes, disposal areas, and spills. Thus, SRS has an urgent need to remediate large quantities of contaminated soil that are currently stockpiled and the anticipated contaminated soils to be generated from accidental spills. As long as we utilize petroleum based compounds at the site, we will continue to generate contaminated soil that will require remediation

Propagation of soil moisture memory into the climate system

Science.gov (United States)

Orth, R.; Seneviratne, S. I.

2012-04-01

Soil moisture is known for its integrative behaviour and resulting memory characteristics. Associated anomalies can persist for weeks or even months into the future, making initial soil moisture an important potential component in weather forecasting. This is particularly crucial given the role of soil moisture for land-atmosphere interactions and its impacts on the water and energy balances on continents. We present here an analysis of the characteristics of soil moisture memory and of its propagation into runoff and evapotranspiration in Europe, based on available measurements from several sites across the continent and expanding a previous analysis focused on soil moisture [1]. We identify the main drivers of soil moisture memory at the analysed sites, as well as their role for the propagation of soil moisture persistence into runoff and evapotranspiration memory characteristics. We focus on temporal and spatial variations in these relationships and identify seasonal and latitudinal differences in the persistence of soil moisture, evapotranspiration and runoff. Finally, we assess the role of these persistence characteristics for the development of agricultural and hydrological droughts. [1] Orth and Seneviratne: Analysis of soil moisture memory from observations in Europe; submitted to J. Geophysical Research.

Congenital Heart Diseases associated with Identified Syndromes ...

African Journals Online (AJOL)

Recognised syndromes were seen in 69(68%) cases. Down syndrome with 54 children contributed 78.3% of those with known syndromes. Other identified syndromes and associations were Marfan's, Noonan's, Edwards, Prune Belly, Apert, Ellis-van creveld syndrome and congenital rubella syndrome. Congenital heart ...

Anerobic soil disinfestation efficacy associated with altered soil microbiome and metabolome

Science.gov (United States)

Anaerobic soil disinfestation (ASD) has demonstrated potential to control numerous soil-borne pathogens in a diversity of production systems. A variety of environmental, biological and application attributes have potential to determine the overall capacity of ASD to provide effective disease control...

Genome wide association study identifies KCNMA1 contributing to human obesity

DEFF Research Database (Denmark)

Jiao, Hong; Arner, Peter; Hoffstedt, Johan

2011-01-01

Recent genome-wide association (GWA) analyses have identified common single nucleotide polymorphisms (SNPs) that are associated with obesity. However, the reported genetic variation in obesity explains only a minor fraction of the total genetic variation expected to be present in the population....... Thus many genetic variants controlling obesity remain to be identified. The aim of this study was to use GWA followed by multiple stepwise validations to identify additional genes associated with obesity....

Identifying Military Impacts on Archaeological Deposits Based on Differences in Soil Organic Carbon and Chemical Elements at Soil Horizon Interfaces

Science.gov (United States)

2012-03-01

Robotic pH meter (AS-3000 Dual pH Analyzer, LabFit, Burswood, Australia) using a 1:1 soil / solution ratio (0.01 M CaCl2) (Kissel et al., 2009). Soil lime...displacement of elements in the soil profile, and alterations in mineralization processes which affect the leachable element concentration in soil solution . Leachable

Exploring innovative techniques for identifying geochemical elements as fingerprints of sediment sources in an agricultural catchment of Argentina affected by soil erosion.

Science.gov (United States)

Torres Astorga, Romina; de Los Santos Villalobos, Sergio; Velasco, Hugo; Domínguez-Quintero, Olgioly; Pereira Cardoso, Renan; Meigikos Dos Anjos, Roberto; Diawara, Yacouba; Dercon, Gerd; Mabit, Lionel

2018-05-15

Identification of hot spots of land degradation is strongly related with the selection of soil tracers for sediment pathways. This research proposes the complementary and integrated application of two analytical techniques to select the most suitable fingerprint tracers for identifying the main sources of sediments in an agricultural catchment located in Central Argentina with erosive loess soils. Diffuse reflectance Fourier transformed in the mid-infrared range (DRIFT-MIR) spectroscopy and energy-dispersive X-ray fluorescence (EDXRF) were used for a suitable fingerprint selection. For using DRIFT-MIR spectroscopy as fingerprinting technique, calibration through quantitative parameters is needed to link and correlate DRIFT-MIR spectra with soil tracers. EDXRF was used in this context for determining the concentrations of geochemical elements in soil samples. The selected tracers were confirmed using two artificial mixtures composed of known proportions of soil collected in different sites with distinctive soil uses. These fingerprint elements were used as parameters to build a predictive model with the whole set of DRIFT-MIR spectra. Fingerprint elements such as phosphorus, iron, calcium, barium, and titanium were identified for obtaining a suitable reconstruction of the source proportions in the artificial mixtures. Mid-infrared spectra produced successful prediction models (R 2  = 0.91) for Fe content and moderate useful prediction (R 2  = 0.72) for Ti content. For Ca, P, and Ba, the R 2 were 0.44, 0.58, and 0.59 respectively.

Association analysis identifies ZNF750 regulatory variants in psoriasis

Directory of Open Access Journals (Sweden)

Birnbaum Ramon Y

2011-12-01

Full Text Available Abstract Background Mutations in the ZNF750 promoter and coding regions have been previously associated with Mendelian forms of psoriasis and psoriasiform dermatitis. ZNF750 encodes a putative zinc finger transcription factor that is highly expressed in keratinocytes and represents a candidate psoriasis gene. Methods We examined whether ZNF750 variants were associated with psoriasis in a large case-control population. We sequenced the promoter and exon regions of ZNF750 in 716 Caucasian psoriasis cases and 397 Caucasian controls. Results We identified a total of 47 variants, including 38 rare variants of which 35 were novel. Association testing identified two ZNF750 haplotypes associated with psoriasis (p ZNF750 promoter and 5' UTR variants displayed a 35-55% reduction of ZNF750 promoter activity, consistent with the promoter activity reduction seen in a Mendelian psoriasis family with a ZNF750 promoter variant. However, the rare promoter and 5' UTR variants identified in this study did not strictly segregate with the psoriasis phenotype within families. Conclusions Two haplotypes of ZNF750 and rare 5' regulatory variants of ZNF750 were found to be associated with psoriasis. These rare 5' regulatory variants, though not causal, might serve as a genetic modifier of psoriasis.

Using lagged dependence to identify (de)coupled surface and subsurface soil moisture values

Science.gov (United States)

Carranza, Coleen D. U.; van der Ploeg, Martine J.; Torfs, Paul J. J. F.

2018-04-01

Recent advances in radar remote sensing popularized the mapping of surface soil moisture at different spatial scales. Surface soil moisture measurements are used in combination with hydrological models to determine subsurface soil moisture values. However, variability of soil moisture across the soil column is important for estimating depth-integrated values, as decoupling between surface and subsurface can occur. In this study, we employ new methods to investigate the occurrence of (de)coupling between surface and subsurface soil moisture. Using time series datasets, lagged dependence was incorporated in assessing (de)coupling with the idea that surface soil moisture conditions will be reflected at the subsurface after a certain delay. The main approach involves the application of a distributed-lag nonlinear model (DLNM) to simultaneously represent both the functional relation and the lag structure in the time series. The results of an exploratory analysis using residuals from a fitted loess function serve as a posteriori information to determine (de)coupled values. Both methods allow for a range of (de)coupled soil moisture values to be quantified. Results provide new insights into the decoupled range as its occurrence among the sites investigated is not limited to dry conditions.

Mapping specific soil functions based on digital soil property maps

Science.gov (United States)

Pásztor, László; Fodor, Nándor; Farkas-Iványi, Kinga; Szabó, József; Bakacsi, Zsófia; Koós, Sándor

2016-04-01

Quantification of soil functions and services is a great challenge in itself even if the spatial relevance is supposed to be identified and regionalized. Proxies and indicators are widely used in ecosystem service mapping. Soil services could also be approximated by elementary soil features. One solution is the association of soil types with services as basic principle. Soil property maps however provide quantified spatial information, which could be utilized more versatilely for the spatial inference of soil functions and services. In the frame of the activities referred as "Digital, Optimized, Soil Related Maps and Information in Hungary" (DOSoReMI.hu) numerous soil property maps have been compiled so far with proper DSM techniques partly according to GSM.net specifications, partly by slightly or more strictly changing some of its predefined parameters (depth intervals, pixel size, property etc.). The elaborated maps have been further utilized, since even DOSoReMI.hu was intended to take steps toward the regionalization of higher level soil information (secondary properties, functions, services). In the meantime the recently started AGRAGIS project requested spatial soil related information in order to estimate agri-environmental related impacts of climate change and support the associated vulnerability assessment. One of the most vulnerable services of soils in the context of climate change is their provisioning service. In our work it was approximated by productivity, which was estimated by a sequential scenario based crop modelling. It took into consideration long term (50 years) time series of both measured and predicted climatic parameters as well as accounted for the potential differences in agricultural practice and crop production. The flexible parametrization and multiple results of modelling was then applied for the spatial assessment of sensitivity, vulnerability, exposure and adaptive capacity of soils in the context of the forecasted changes in

Mobilization of selenium from the Mancos Shale and associated soils in the lower Uncompahgre River Basin, Colorado

Science.gov (United States)

Mast, M. Alisa; Mills, Taylor J.; Paschke, Suzanne S.; Keith, Gabrielle; Linard, Joshua I.

2014-01-01

This study investigates processes controlling mobilization of selenium in the lower part of the Uncompahgre River Basin in western Colorado. Selenium occurs naturally in the underlying Mancos Shale and is leached to groundwater and surface water by limited natural runoff, agricultural and domestic irrigation, and leakage from irrigation canals. Soil and sediment samples from the study area were tested using sequential extractions to identify the forms of selenium present in solid phases. Selenium speciation was characterized for nonirrigated and irrigated soils from an agricultural site and sediments from a wetland formed by a leaking canal. In nonirrigated areas, selenium was present in highly soluble sodium salts and gypsum. In irrigated soils, soluble forms of selenium were depleted and most selenium was associated with organic matter that was stable under near-surface weathering conditions. Laboratory leaching experiments and geochemical modeling confirm that selenium primarily is released to groundwater and surface water by dissolution of highly soluble selenium-bearing salts and gypsum present in soils and bedrock. Rates of selenium dissolution determined from column leachate experiments indicate that selenium is released most rapidly when water is applied to previously nonirrigated soils and sediment. High concentrations of extractable nitrate also were found in nonirrigated soils and bedrock that appear to be partially derived from weathered organic matter from the shale rather than from agricultural sources. Once selenium is mobilized, dissolved nitrate derived from natural sources appears to inhibit the reduction of dissolved selenium leading to elevated concentrations of selenium in groundwater. A conceptual model of selenium weathering is presented and used to explain seasonal variations in the surface-water chemistry of Loutzenhizer Arroyo, a major tributary contributor of selenium to the lower Uncompahgre River.

Environmental drivers of viral community composition in Antarctic soils identified by viromics.

Science.gov (United States)

Adriaenssens, Evelien M; Kramer, Rolf; Van Goethem, Marc W; Makhalanyane, Thulani P; Hogg, Ian; Cowan, Don A

2017-07-19

The Antarctic continent is considered the coldest and driest place on earth with simple ecosystems, devoid of higher plants. Soils in the ice-free regions of Antarctica are known to harbor a wide range of microorganisms from primary producers to grazers, yet their ecology and particularly the role of viruses is poorly understood. In this study, we examined the virus community structures of 14 soil samples from the Mackay Glacier region. Viral communities were extracted from soil and the dsDNA was extracted, amplified using single-primer amplification, and sequenced using the Ion Torrent Proton platform. Metadata on soil physico-chemistry was collected from all sites. Both read and contig datasets were analyzed with reference-independent and reference-dependent methods to assess viral community structures and the influence of environmental parameters on their distribution. We observed a high heterogeneity in virus signatures, independent of geographical proximity. Tailed bacteriophages were dominant in all samples, but the incidences of the affiliated families Siphoviridae and Myoviridae were inversely correlated, suggesting direct competition for hosts. Viruses of the families Phycodnaviridae and Mimiviridae were present at significant levels in high-diversity soil samples and were found to co-occur, implying little competition between them. Combinations of soil factors, including pH, calcium content, and site altitude, were found to be the main drivers of viral community structure. The pattern of viral community structure with higher levels of diversity at lower altitude and pH, and co-occurring viral families, suggests that these cold desert soil viruses interact with each other, the host, and the environment in an intricate manner, playing a potentially crucial role in maintaining host diversity and functioning of the microbial ecosystem in the extreme environments of Antarctic soil.

Yield-related salinity tolerance traits identified in a nested association mapping (NAM) population of wild barley

KAUST Repository

Saade, Stephanie

2016-09-02

Producing sufficient food for nine billion people by 2050 will be constrained by soil salinity, especially in irrigated systems. To improve crop yield, greater understanding of the genetic control of traits contributing to salinity tolerance in the field is needed. Here, we exploit natural variation in exotic germplasm by taking a genome-wide association approach to a new nested association mapping population of barley called HEB-25. The large population (1,336 genotypes) allowed cross-validation of loci, which, along with two years of phenotypic data collected from plants irrigated with fresh and saline water, improved statistical power. We dissect the genetic architecture of flowering time under high salinity and we present genes putatively affecting this trait and salinity tolerance. In addition, we identify a locus on chromosome 2H where, under saline conditions, lines homozygous for the wild allele yielded 30% more than did lines homozygous for the Barke allele. Introgressing this wild allele into elite cultivars could markedly improve yield under saline conditions. © 2016 The Author(s).

Assessing Soil Organic C Stability at the Continental Scale: An Analysis of Soil C and Radiocarbon Profiles Across the NEON Sites

Science.gov (United States)

Heckman, K. A.; Gallo, A.; Hatten, J. A.; Swanston, C.; McKnight, D. M.; Strahm, B. D.; Sanclements, M.

2017-12-01

Soil carbon stocks have become recognized as increasingly important in the context of climate change and global C cycle modeling. As modelers seek to identify key parameters affecting the size and stability of belowground C stocks, attention has been drawn to the mineral matrix and the soil physiochemical factors influenced by it. Though clay content has often been utilized as a convenient and key explanatory variable for soil C dynamics, its utility has recently come under scrutiny as new paradigms of soil organic matter stabilization have been developed. We utilized soil cores from a range of National Ecological Observatory Network (NEON) experimental plots to examine the influence of physicochemical parameters on soil C stocks and turnover, and their relative importance in comparison to climatic variables. Soils were cored at NEON sites, sampled by genetic horizon, and density separated into light fractions (particulate organics neither occluded within aggregates nor associated with mineral surfaces), occluded fractions (particulate organics occluded within aggregates), and heavy fractions (organics associated with mineral surfaces). Bulk soils and density fractions were measured for % C and radiocarbon abundance (as a measure of C stability). Carbon and radiocarbon abundances were examined among fractions and in the context of climatic variables (temperature, precipitation, elevation) and soil physiochemical variables (% clay and pH). No direct relationships between temperature and soil C or radiocarbon abundances were found. As a whole, soil radiocarbon abundance in density fractions decreased in the order of light>heavy>occluded, highlighting the importance of both surface sorption and aggregation to the preservation of organics. Radiocarbon abundance was correlated with pH, with variance also grouping by dominate vegetation type. Soil order was also identified as an important proxy variable for C and radiocarbon abundance. Preliminary results suggest that

Presence of Fusarium spp. in air and soil associated with sorghum fields

Science.gov (United States)

Sorghum grain, valuable for feed, food and bioenergy, can be colonized by several Fusarium species; therefore, it was of interest to identify possible sources of conidia. Analysis of air and soil samples provided evidence for the presence of propagules from Fusarium genotypes that may cause grain in...

Paradoxical associations between soil-transmitted helminths and Plasmodium falciparum infection.

Science.gov (United States)

Fernández-Niño, Julián A; Idrovo, Alvaro J; Cucunubá, Zulma M; Reyes-Harker, Patricia; Guerra, Ángela P; Moncada, Ligia I; López, Myriam C; Barrera, Sandra M; Cortés, Liliana J; Olivera, Mario; Nicholls, Rubén S

2012-11-01

Evidence on the comorbidity between soil-transmitted helminth infections and malaria is scarce and divergent. This study explored the interactions between soil-transmitted helminth infections and uncomplicated falciparum malaria in an endemic area of Colombia. A paired case-control study matched by sex, age and location in Tierralta, Cordoba, was done between January and September 2010. The incident cases were 68 patients with falciparum malaria and 178 asymptomatic controls. A questionnaire was used to gather information on sociodemographic variables. Additionally physical examinations were carried out, stool samples were analysed for intestinal parasites and blood samples for Ig E concentrations. We found associations between infection with hookworm (OR: 4.21; 95% CI: 1.68-11.31) and Ascaris lumbricoides (OR 0.43; 95% CI: 0.18-1.04) and the occurrence of falciparum malaria. The effects of soil-transmitted helminths on the occurrence of malaria were found to be paradoxical. While hookworm is a risk factor, A. lumbricoides has a protective effect. The findings suggest that, in addition to the comorbidity, the presence of common determinants of soil-transmitted helminth infections and malaria could also exist. While the biological mechanisms involved are not clear, public health policies aimed at the control of their common social and environmental determinants are suggested. Copyright © 2012 Royal Society of Tropical Medicine and Hygiene. Published by Elsevier Ltd. All rights reserved.

RELATIONSHIPS BETWEEN SOIL MICROBIAL BIOMASS, AGGREGATE STABILITY AND AGGREGATE ASSOCIATED-C: A MECHANISTIC APPROACH

Directory of Open Access Journals (Sweden)

Patrizia Guidi

2014-01-01

Full Text Available For the identification of C pools involved in soil aggregation, a physically-based aggregate fractionation was proposed, and  additional pretreatments were used in the measurement of the 1-2 mm aggregate stability in order to elucidate the relevance of the role of soil microorganisms with respect to the different aggregate breakdown mechanisms. The study was carried out on three clay loam Regosols, developed on calcareous shales, known history of organic cultivation.Our results showed that the soil C pool controlling the process of stabilisation of aggregates was related to the microbial community. We identified the resistance to fast wetting as the major mechanism of aggregate stability driven by microorganims. The plausible hypothesis is that organic farming promotes fungi growth, improving water repellency of soil aggregates by fungal hydrophobic substances. By contrast, we failed in the identification of C pools controlling the formation of aggregates, probably because of the disturbance of mechanical tillage which contributes to the breakdown of soil aggregates.The physically-based aggregate fractionation proposed in this study resulted useful in the  mechanistically understanding of the role of microorganisms in soil aggregation and it might be suggested for studying the impact of management on C pools, aggregates properties and their relationships in agricultural soils.

Cadmium and associated metals in soils and sediments of wetlands across the Northern Plains, USA

International Nuclear Information System (INIS)

Jacob, Donna L.; Yellick, Alex H.; Kissoon, La Toya T.; Asgary, Aida; Wijeyaratne, Dimuthu N.; Saini-Eidukat, Bernhardt; Otte, Marinus L.

2013-01-01

Cadmium, present locally in naturally high concentrations in the Northern Plains of the United States, is of concern because of its toxicity, carcinogenic properties, and potential for trophic transfer. Reports of natural concentrations in soils are dominated by dryland soils with agricultural land uses, but much less is known about cadmium in wetlands. Four wetland categories – prairie potholes, shallow lakes, riparian wetlands, and river sediments – were sampled comprising more than 300 wetlands across four states, the majority in North Dakota. Cd, Zn, P, and other elements were analyzed by ICP-MS, in addition to pH and organic matter (as loss-on-ignition). The overall cadmium content was similar to the general concentrations in the area's soils, but distinct patterns occurred within categories. Cd in wetland soils is associated with underlying geology and hydrology, but also strongly with concentrations of P and Zn, suggesting a link with agricultural land use surrounding the wetlands. -- Highlights: •Cd concentrations in wetland soils average 0.0034 ± 0.0015 μmol g −1 . •Minnesota shallow lakes show wider range in Cd concentrations than prairie potholes. •Cd in prairie potholes varies between Level III Ecoregions. •Cd in wetlands is associated with Zn and P. •Cd in wetlands seems associated with geology, hydrology, and land use. -- A comprehensive study on the distribution of cadmium in diverse wetlands across a large region varying in landscape and land uses

Soil microorganisms alleviate the allelochemical effects of a thyme monoterpene on the performance of an associated grass species.

Science.gov (United States)

Ehlers, Bodil K

2011-01-01

Plant allelochemicals released into the soil can significantly impact the performance of associated plant species thereby affecting their competitive ability. Soil microbes can potentially affect the interaction between plant and plant chemicals by degrading the allelochemicals. However, most often plant-plant chemical interactions are studied using filter paper bioassays examining the pair-wise interaction between a plant and a plant chemical, not taking into account the potential role of soil microorganisms. To explore if the allelopathic effects on a grass by the common thyme monoterpene "carvacrol" are affected by soil microorganisms. Seedlings of the grass Agrostis capillaris originating from 3 different thyme sites were raised in the greenhouse. Seedlings were grown under four different soil treatments in a 2*2 fully factorial experiment. The monoterpene carvacrol was either added to standard greenhouse soil or left out, and soil was either sterilized (no soil microorganisms) or not (soil microorganisms present in soil). The presence of carvacrol in the soil strongly increased mortality of Agrostis plants, and this increase was highest on sterile soil. Plant biomass was reduced on soil amended with carvacrol, but only when the soil was also sterilized. Plants originating from sites where thyme produces essential oils containing mostly carvacrol had higher survival on soil treated with that monoterpene than plants originating from a site where thyme produced different types of terpenes, suggesting an adaptive response to the locally occurring terpene. The study shows that presence of soil microorganisms can alleviate the negative effect of a common thyme monoterpene on the performance of an associated plant species, emphasizing the role of soil microbes in modulating plant-plant chemical interactions.

Soil microorganisms alleviate the allelochemical effects of a thyme monoterpene on the performance of an associated grass species.

Directory of Open Access Journals (Sweden)

Bodil K Ehlers

Full Text Available Plant allelochemicals released into the soil can significantly impact the performance of associated plant species thereby affecting their competitive ability. Soil microbes can potentially affect the interaction between plant and plant chemicals by degrading the allelochemicals. However, most often plant-plant chemical interactions are studied using filter paper bioassays examining the pair-wise interaction between a plant and a plant chemical, not taking into account the potential role of soil microorganisms.To explore if the allelopathic effects on a grass by the common thyme monoterpene "carvacrol" are affected by soil microorganisms. Seedlings of the grass Agrostis capillaris originating from 3 different thyme sites were raised in the greenhouse. Seedlings were grown under four different soil treatments in a 2*2 fully factorial experiment. The monoterpene carvacrol was either added to standard greenhouse soil or left out, and soil was either sterilized (no soil microorganisms or not (soil microorganisms present in soil. The presence of carvacrol in the soil strongly increased mortality of Agrostis plants, and this increase was highest on sterile soil. Plant biomass was reduced on soil amended with carvacrol, but only when the soil was also sterilized. Plants originating from sites where thyme produces essential oils containing mostly carvacrol had higher survival on soil treated with that monoterpene than plants originating from a site where thyme produced different types of terpenes, suggesting an adaptive response to the locally occurring terpene.The study shows that presence of soil microorganisms can alleviate the negative effect of a common thyme monoterpene on the performance of an associated plant species, emphasizing the role of soil microbes in modulating plant-plant chemical interactions.

Soil Microorganisms Alleviate the Allelochemical Effects of a Thyme Monoterpene on the Performance of an Associated Grass Species

Science.gov (United States)

Ehlers, Bodil K.

2011-01-01

Background Plant allelochemicals released into the soil can significantly impact the performance of associated plant species thereby affecting their competitive ability. Soil microbes can potentially affect the interaction between plant and plant chemicals by degrading the allelochemicals. However, most often plant-plant chemical interactions are studied using filter paper bioassays examining the pair-wise interaction between a plant and a plant chemical, not taking into account the potential role of soil microorganisms. Methodology/Principal findings To explore if the allelopathic effects on a grass by the common thyme monoterpene “carvacrol” are affected by soil microorganisms. Seedlings of the grass Agrostis capillaris originating from 3 different thyme sites were raised in the greenhouse. Seedlings were grown under four different soil treatments in a 2*2 fully factorial experiment. The monoterpene carvacrol was either added to standard greenhouse soil or left out, and soil was either sterilized (no soil microorganisms) or not (soil microorganisms present in soil). The presence of carvacrol in the soil strongly increased mortality of Agrostis plants, and this increase was highest on sterile soil. Plant biomass was reduced on soil amended with carvacrol, but only when the soil was also sterilized. Plants originating from sites where thyme produces essential oils containing mostly carvacrol had higher survival on soil treated with that monoterpene than plants originating from a site where thyme produced different types of terpenes, suggesting an adaptive response to the locally occurring terpene. Conclusions/Significance The study shows that presence of soil microorganisms can alleviate the negative effect of a common thyme monoterpene on the performance of an associated plant species, emphasizing the role of soil microbes in modulating plant-plant chemical interactions. PMID:22125596

Genome-wide association study identifies genetic loci associated with iron deficiency.

Directory of Open Access Journals (Sweden)

Christine E McLaren

2011-03-01

Full Text Available The existence of multiple inherited disorders of iron metabolism in man, rodents and other vertebrates suggests genetic contributions to iron deficiency. To identify new genomic locations associated with iron deficiency, a genome-wide association study (GWAS was performed using DNA collected from white men aged≥25 y and women≥50 y in the Hemochromatosis and Iron Overload Screening (HEIRS Study with serum ferritin (SF≤12 µg/L (cases and iron replete controls (SF>100 µg/L in men, SF>50 µg/L in women. Regression analysis was used to examine the association between case-control status (336 cases, 343 controls and quantitative serum iron measures and 331,060 single nucleotide polymorphism (SNP genotypes, with replication analyses performed in a sample of 71 cases and 161 controls from a population of white male and female veterans screened at a US Veterans Affairs (VA medical center. Five SNPs identified in the GWAS met genome-wide statistical significance for association with at least one iron measure, rs2698530 on chr. 2p14; rs3811647 on chr. 3q22, a known SNP in the transferrin (TF gene region; rs1800562 on chr. 6p22, the C282Y mutation in the HFE gene; rs7787204 on chr. 7p21; and rs987710 on chr. 22q11 (GWAS observed P<1.51×10(-7 for all. An association between total iron binding capacity and SNP rs3811647 in the TF gene (GWAS observed P=7.0×10(-9, corrected P=0.012 was replicated within the VA samples (observed P=0.012. Associations with the C282Y mutation in the HFE gene also were replicated. The joint analysis of the HEIRS and VA samples revealed strong associations between rs2698530 on chr. 2p14 and iron status outcomes. These results confirm a previously-described TF polymorphism and implicate one potential new locus as a target for gene identification.

Highly Diverse Endophytic and Soil Fusarium oxysporum Populations Associated with Field-Grown Tomato Plants

Science.gov (United States)

Demers, Jill E.; Gugino, Beth K.

2014-01-01

The diversity and genetic differentiation of populations of Fusarium oxysporum associated with tomato fields, both endophytes obtained from tomato plants and isolates obtained from soil surrounding the sampled plants, were investigated. A total of 609 isolates of F. oxysporum were obtained, 295 isolates from a total of 32 asymptomatic tomato plants in two fields and 314 isolates from eight soil cores sampled from the area surrounding the plants. Included in this total were 112 isolates from the stems of all 32 plants, a niche that has not been previously included in F. oxysporum population genetics studies. Isolates were characterized using the DNA sequence of the translation elongation factor 1α gene. A diverse population of 26 sequence types was found, although two sequence types represented nearly two-thirds of the isolates studied. The sequence types were placed in different phylogenetic clades within F. oxysporum, and endophytic isolates were not monophyletic. Multiple sequence types were found in all plants, with an average of 4.2 per plant. The population compositions differed between the two fields but not between soil samples within each field. A certain degree of differentiation was observed between populations associated with different tomato cultivars, suggesting that the host genotype may affect the composition of plant-associated F. oxysporum populations. No clear patterns of genetic differentiation were observed between endophyte populations and soil populations, suggesting a lack of specialization of endophytic isolates. PMID:25304514

Local soil classification and crop suitability: Implications for the historical land use and soil management in Monti di Trapani (Sicily)

Science.gov (United States)

Garcia-Vila, Margarita; Corselli, Rocco; Bonet, María Teresa; Lopapa, Giuseppe; Pillitteri, Valentina; Fereres, Elias

2017-04-01

In the past, the lack of technologies (e.g. synthetic fertilizers) to overcome biophysical limitations has played a central role in land use planning. Thus, landscape management and agronomic practices are reactions to local knowledge and perceptions on natural resources, particularly soil. In the framework of the European research project MEMOLA (FP7), the role of local farmers knowledge and perceptions on soil for the historical land use through the spatial distribution of crops and the various management practices have been assessed in three different areas of Monti di Trapani region (Sicily). The identification of the soil classification systems of farmers and the criteria on which it is based, linked to the evaluation of the farmers' ability to identify and map the different soil types, was a key step. Nevertheless, beyond the comparison of the ethnopedological classification approach versus standard soil classification systems, the study also aims at understanding local soil management and land use decisions. The applied methodology was based on an interdisciplinary approach, combining soil science methods and participatory appraisal tools, particularly: i) semi-structured interviews; ii) soil sampling and analysis; iii) discussion groups; and iv) a workshop with local edafologists and agronomists. A rich local glossary of terms associated with the soil conditions and an own soil classification system have been identified in the region. Also, a detailed soil map, including process of soil degradation and soil capability, has been generated. This traditional soil knowledge has conditioned the management and the spatial distribution of the crops, and therefore the configuration of the landscape, until the 1990s. Acknowledgements This work has been funded by the European Union project MEMOLA (Grant agreement no: 613265).

Bacteria Associated to Plants Naturally Selected in a Historical PCB Polluted Soil Show Potential to Sustain Natural Attenuation.

Science.gov (United States)

Vergani, Lorenzo; Mapelli, Francesca; Marasco, Ramona; Crotti, Elena; Fusi, Marco; Di Guardo, Antonio; Armiraglio, Stefano; Daffonchio, Daniele; Borin, Sara

2017-01-01

The exploitation of the association between plants and microorganisms is a promising approach able to boost natural attenuation processes for soil clean-up in vast polluted areas characterized by mixed chemical contamination. We aimed to explore the selection of root-associated bacterial communities driven by different plant species spontaneously established in abandoned agricultural soils within a historical polluted site in north Italy. The site is highly contaminated by chlorinated persistent organic pollutants, mainly constituted by polychlorobiphenyls (PCBs), together with heavy metals and metalloids, in variable concentrations and uneven distribution. The overall structure of the non-vegetated and root-associated soil fractions bacterial communities was described by high-throughput sequencing of the 16S rRNA gene, and a collection of 165 rhizobacterial isolates able to use biphenyl as unique carbon source was assayed for plant growth promotion (PGP) traits and bioremediation potential. The results showed that the recruitment of specific bacterial communities in the root-associated soil fractions was driven by both soil fractions and plant species, explaining 21 and 18% of the total bacterial microbiome variation, respectively. PCR-based detection in the soil metagenome of bacterial bphA gene, encoding for the biphenyl dioxygenase α subunit, indicated that the soil in the site possesses metabolic traits linked to PCB degradation. Biphenyl-utilizing bacteria isolated from the rhizosphere of the three different plant species showed low phylogenetic diversity and well represented functional traits, in terms of PGP and bioremediation potential. On average, 72% of the strains harbored the bphA gene and/or displayed catechol 2,3-dioxygenase activity, involved in aromatic ring cleavage. PGP traits, including 1-aminocyclopropane-1-carboxylic acid deaminase activity potentially associated to plant stress tolerance induction, were widely distributed among the isolates

Bacteria Associated to Plants Naturally Selected in a Historical PCB Polluted Soil Show Potential to Sustain Natural Attenuation

KAUST Repository

Vergani, Lorenzo

2017-07-25

The exploitation of the association between plants and microorganisms is a promising approach able to boost natural attenuation processes for soil clean-up in vast polluted areas characterized by mixed chemical contamination. We aimed to explore the selection of root-associated bacterial communities driven by different plant species spontaneously established in abandoned agricultural soils within a historical polluted site in north Italy. The site is highly contaminated by chlorinated persistent organic pollutants, mainly constituted by polychlorobiphenyls (PCBs), together with heavy metals and metalloids, in variable concentrations and uneven distribution. The overall structure of the non-vegetated and root-associated soil fractions bacterial communities was described by high-throughput sequencing of the 16S rRNA gene, and a collection of 165 rhizobacterial isolates able to use biphenyl as unique carbon source was assayed for plant growth promotion (PGP) traits and bioremediation potential. The results showed that the recruitment of specific bacterial communities in the root-associated soil fractions was driven by both soil fractions and plant species, explaining 21 and 18% of the total bacterial microbiome variation, respectively. PCR-based detection in the soil metagenome of bacterial bphA gene, encoding for the biphenyl dioxygenase α subunit, indicated that the soil in the site possesses metabolic traits linked to PCB degradation. Biphenyl-utilizing bacteria isolated from the rhizosphere of the three different plant species showed low phylogenetic diversity and well represented functional traits, in terms of PGP and bioremediation potential. On average, 72% of the strains harbored the bphA gene and/or displayed catechol 2,3-dioxygenase activity, involved in aromatic ring cleavage. PGP traits, including 1-aminocyclopropane-1-carboxylic acid deaminase activity potentially associated to plant stress tolerance induction, were widely distributed among the isolates

Bacteria Associated to Plants Naturally Selected in a Historical PCB Polluted Soil Show Potential to Sustain Natural Attenuation

Directory of Open Access Journals (Sweden)

Lorenzo Vergani

2017-07-01

Full Text Available The exploitation of the association between plants and microorganisms is a promising approach able to boost natural attenuation processes for soil clean-up in vast polluted areas characterized by mixed chemical contamination. We aimed to explore the selection of root-associated bacterial communities driven by different plant species spontaneously established in abandoned agricultural soils within a historical polluted site in north Italy. The site is highly contaminated by chlorinated persistent organic pollutants, mainly constituted by polychlorobiphenyls (PCBs, together with heavy metals and metalloids, in variable concentrations and uneven distribution. The overall structure of the non-vegetated and root-associated soil fractions bacterial communities was described by high-throughput sequencing of the 16S rRNA gene, and a collection of 165 rhizobacterial isolates able to use biphenyl as unique carbon source was assayed for plant growth promotion (PGP traits and bioremediation potential. The results showed that the recruitment of specific bacterial communities in the root-associated soil fractions was driven by both soil fractions and plant species, explaining 21 and 18% of the total bacterial microbiome variation, respectively. PCR-based detection in the soil metagenome of bacterial bphA gene, encoding for the biphenyl dioxygenase α subunit, indicated that the soil in the site possesses metabolic traits linked to PCB degradation. Biphenyl-utilizing bacteria isolated from the rhizosphere of the three different plant species showed low phylogenetic diversity and well represented functional traits, in terms of PGP and bioremediation potential. On average, 72% of the strains harbored the bphA gene and/or displayed catechol 2,3-dioxygenase activity, involved in aromatic ring cleavage. PGP traits, including 1-aminocyclopropane-1-carboxylic acid deaminase activity potentially associated to plant stress tolerance induction, were widely distributed

Influence of iron redox cycling on organo-mineral associations in arctic tundra soils

Science.gov (United States)

Herndon, E.; AlBashaireh, A.; Duroe, K.; Singer, D. M.

2016-12-01

Geochemical interactions between soil organic matter and minerals influence decomposition in many environments but remain poorly understood in arctic tundra systems. In tundra soils that are periodically to persistently saturated, the accumulation of iron oxyhydroxides and organo-iron precipitates at redox interfaces may inhibit decomposition by binding organic molecules and protecting them from microbial degradation. Here, we couple synchrotron-source spectroscopic techniques with chemical sequential extractions and physical density fractionations to evaluate the spatial distribution and speciation of Fe-bearing phases and associated organic matter in organic and mineral horizons of the seasonally thawed active layer in tundra soils from northern Alaska. Mineral-associated organic matter comprised 63 ± 9% of soil organic carbon stored in the active layer of ice wedge polygons. Ferrous iron produced in anoxic mineral horizons diffused upwards and precipitated as poorly-crystalline oxyhydroxides and organic-bound Fe(III) in the organic horizons. Ferrihydrite and goethite were present as coatings on mineral grains and plant debris and in aggregates with clays and particulate organic matter. Organic matter released through acid-dissolution of iron oxides may represent a small pool of readily-degradable organic molecules temporarily stabilized by sorption to iron oxyhydroxide surfaces, while larger quantities of particulate organic carbon and humic-like substances may be physically protected from decomposition by Fe-oxide coatings and aggregation. We conclude that formation of poorly-crystalline and crystalline iron oxides at redox interfaces contributes to mineral protection of organic matter through sorption, aggregation, and co-precipitation reactions. Further study of organo-mineral associations is necessary to determine the net impact of mineral-stabilization on carbon storage in rapidly warming arctic ecosystems.

Genome-wide association study identifies 74 loci associated with educational attainment

DEFF Research Database (Denmark)

Okbay, Aysu; P. Beauchamp, Jonathan; Alan Fontana, Mark

2016-01-01

-nucleotide polymorphisms associated with educational attainment are disproportionately found in genomic regions regulating gene expression in the fetal brain. Candidate genes are preferentially expressed in neural tissue, especially during the prenatal period, and enriched for biological pathways involved in neural......Educational attainment is strongly influenced by social and other environmental factors, but genetic factors are estimated to account for at least 20% of the variation across individuals1. Here we report the results of a genome-wide association study (GWAS) for educational attainment that extends...... development. Our findings demonstrate that, even for a behavioural phenotype that is mostly environmentally determined, a well-powered GWAS identifies replicable associated genetic variants that suggest biologically relevant pathways. Because educational attainment is measured in large numbers of individuals...

Manure-amended soil characteristics affecting the survival of E. coli O157:h7 in 36 Dutch soils

NARCIS (Netherlands)

Franz, E.; Semenov, A.V.; Termorshuizen, A.J.; Vos, de O.J.; Bokhorst, J.G.; Bruggen, van A.H.C.

2008-01-01

The recent increase in foodborne disease associated with the consumption of fresh vegetables stresses the importance of the development of intervention strategies that minimize the risk of preharvest contamination. To identify risk factors for Escherichia coli O157:H7 persistence in soil, we studied

Associations between soil bacterial community structure and nutrient cycling functions in long-term organic farm soils following cover crop and organic fertilizer amendment.

Science.gov (United States)

Fernandez, Adria L; Sheaffer, Craig C; Wyse, Donald L; Staley, Christopher; Gould, Trevor J; Sadowsky, Michael J

2016-10-01

Agricultural management practices can produce changes in soil microbial populations whose functions are crucial to crop production and may be detectable using high-throughput sequencing of bacterial 16S rRNA. To apply sequencing-derived bacterial community structure data to on-farm decision-making will require a better understanding of the complex associations between soil microbial community structure and soil function. Here 16S rRNA sequencing was used to profile soil bacterial communities following application of cover crops and organic fertilizer treatments in certified organic field cropping systems. Amendment treatments were hairy vetch (Vicia villosa), winter rye (Secale cereale), oilseed radish (Raphanus sativus), buckwheat (Fagopyrum esculentum), beef manure, pelleted poultry manure, Sustane(®) 8-2-4, and a no-amendment control. Enzyme activities, net N mineralization, soil respiration, and soil physicochemical properties including nutrient levels, organic matter (OM) and pH were measured. Relationships between these functional and physicochemical parameters and soil bacterial community structure were assessed using multivariate methods including redundancy analysis, discriminant analysis, and Bayesian inference. Several cover crops and fertilizers affected soil functions including N-acetyl-β-d-glucosaminidase and β-glucosidase activity. Effects, however, were not consistent across locations and sampling timepoints. Correlations were observed among functional parameters and relative abundances of individual bacterial families and phyla. Bayesian analysis inferred no directional relationships between functional activities, bacterial families, and physicochemical parameters. Soil functional profiles were more strongly predicted by location than by treatment, and differences were largely explained by soil physicochemical parameters. Composition of soil bacterial communities was predictive of soil functional profiles. Differences in soil function were

Non-destructive estimates of soil carbonic anhydrase activity and associated soil water oxygen isotope composition

Science.gov (United States)

Jones, Sam P.; Ogée, Jérôme; Sauze, Joana; Wohl, Steven; Saavedra, Noelia; Fernández-Prado, Noelia; Maire, Juliette; Launois, Thomas; Bosc, Alexandre; Wingate, Lisa

2017-12-01

The contribution of photosynthesis and soil respiration to net land-atmosphere carbon dioxide (CO2) exchange can be estimated based on the differential influence of leaves and soils on budgets of the oxygen isotope composition (δ18O) of atmospheric CO2. To do so, the activity of carbonic anhydrases (CAs), a group of enzymes that catalyse the hydration of CO2 in soils and plants, needs to be understood. Measurements of soil CA activity typically involve the inversion of models describing the δ18O of CO2 fluxes to solve for the apparent, potentially catalysed, rate of CO2 hydration. This requires information about the δ18O of CO2 in isotopic equilibrium with soil water, typically obtained from destructive, depth-resolved sampling and extraction of soil water. In doing so, an assumption is made about the soil water pool that CO2 interacts with, which may bias estimates of CA activity if incorrect. Furthermore, this can represent a significant challenge in data collection given the potential for spatial and temporal variability in the δ18O of soil water and limited a priori information with respect to the appropriate sampling resolution and depth. We investigated whether we could circumvent this requirement by inferring the rate of CO2 hydration and the δ18O of soil water from the relationship between the δ18O of CO2 fluxes and the δ18O of CO2 at the soil surface measured at different ambient CO2 conditions. This approach was tested through laboratory incubations of air-dried soils that were re-wetted with three waters of different δ18O. Gas exchange measurements were made on these soils to estimate the rate of hydration and the δ18O of soil water, followed by soil water extraction to allow for comparison. Estimated rates of CO2 hydration were 6.8-14.6 times greater than the theoretical uncatalysed rate of hydration, indicating that CA were active in these soils. Importantly, these estimates were not significantly different among water treatments, suggesting

Risk characterization and remedial management of TPH-affected soils

International Nuclear Information System (INIS)

Smith, J.; Von Burg, R.; Preslo, L.; Lakin, M.

1994-01-01

A risk-based remedial program for petroleum hydrocarbon affected soils has been implemented at a large land parcel in California. The site is the former location of a manufacturing facility that had been in operation since the 1940s. As a result of various activities related to parts manufacturing, several large areas of soil were found to contain various petroleum products. The primary sources of petroleum hydrocarbons included cutting oils, lubricating oils, fuels, and hydraulic oils associated with the site operations. Concentrations of total petroleum hydrocarbons (TPH) as high as 100,000 mg/kg were identified in soil. These high concentrations of TPH were identified at depths up to 60 feet below ground surface (bgs), with the vadose zone extending to depths of more than 150 feet bgs. Within California, traditional cleanup levels for TPH-affected soils typically range from 100 to 1,000 mg/kg. Because of the client's desire to sell the property for rapid development, the remedial alternative of excavation and off-haul was deemed too time consuming and costly. The estimated costs associated with this remediation which potentially involved soil removal to 100--120 feet exceeded $20 million and could take up to one year to complete. To meet the schedule requirements for site remediations as well as significantly reduce the overall project cost, the authors undertook a risk-based approach to assess if remediation of the TPH-affected soils was required

The methane sink associated to soils of natural and agricultural ecosystems in Italy.

Science.gov (United States)

Castaldi, Simona; Costantini, Massimo; Cenciarelli, Pietro; Ciccioli, Paolo; Valentini, Riccardo

2007-01-01

In the present work, the CH4 sink associated to Italian soils was calculated by using a process-based model controlled by gas diffusivity and microbial activity, which was run by using a raster-based geographical information system. Georeferenced data included land cover CLC2000, soil properties from the European Soil Database, climatic data from the MARS-STAT database, plus several derived soils properties based on published algorithms applied to the above mentioned databases. Overall CH4 consumption from natural and agricultural sources accounted for a total of 43.3 Gg CH4 yr(-1), with 28.1 Gg CH4 yr(-1) removed in natural ecosystems and 15.1 Gg CH4 yr(-1) in agricultural ecosystems. The highest CH4 uptake rates were obtained for natural areas of Southern Apennines and islands of Sardinia and Sicily, and were mainly associated to areas covered by sclerophyllous vegetation (259.7+/-30.2 mg CH4 m(-2) yr(-1)) and broad-leaved forest (237.5 mg CH4 m(-2) yr(-1)). In terms of total sink strength broad-leaved forests were the dominant ecosystem. The overall contribution of each ecosystem type to the whole CH4 sink depended on the total area covered by the specific ecosystem and on its exact geographic distribution. The latter determines the type of climate present in the area and the dominant soil type, both factors which showed to have a strong influence on CH4 uptake rates. The aggregated CH4 sink, calculated for natural ecosystems present in the Italian region, is significantly higher than previously reported estimates, which were extrapolated from fluxes measured in other temperate ecosystems.

A spatially-based modeling framework for assessing the risks of soil-associated metals to bats

International Nuclear Information System (INIS)

Hernout, Béatrice V.; Somerwill, Kate E.; Arnold, Kathryn E.; McClean, Colin J.; Boxall, Alistair B.A.

2013-01-01

Populations of some species of bats are declining in some regions of Europe. These declines are probably due to a range of pressures, including climate change, urbanization and exposure to toxins such as metals. This paper describes the development, paramaterisation and application of a spatially explicit modeling framework to predict the risks of soil-associated metals (lead, copper, zinc and cadmium) to bat health. Around 5.9% of areas where bats reside were predicted to have lead levels that pose a risk to bat health. For copper, this value was 2.8%, for cadmium it was 0.6% and for zinc 0.5%. Further work is therefore warranted to explore the impacts of soil-associated metals on bat populations in the UK. - Highlights: ► A modeling framework is presented to estimate risks of contaminants to wildlife. ► The model has been applied to soil metal contamination and bat species. ► Results indicate that lead and copper pose the greatest risk to bat health. ► A risk is predicted for up to 6% of areas where bats reside in England and Wales. - Application of a novel, spatially explicit risk assessment framework indicates that the health of insectivorous bat species in some regions of the UK may be at threat from exposure to soil associated metals.

238 series isotopes at different soil depths and disequilibrium over various geology and soil classifications along transects in selected parts of Ireland

International Nuclear Information System (INIS)

McAulay, I.R.; Hayes, A.

1996-01-01

Sampling of soils was carried out along linear transects in selected regions of the country, a technique known as Transect Sampling. This was a controlled rather than a random sampling technique. The transects were located in regions which were previously known to contain high levels of the 226 Ra isotope, from the 238 U series. The soil sampling was carried out at selected sites along these transects. At each transect site, two different soil depths were examined and the soil samples collected were identified as the top and bottom soil samples. This transect data set, consisting of the isotope activity levels and the influencing variables transect geology and soil types, provided a data base for investigation. Comparisons were made between the soil isotope activity levels measured at different soil depths. An examination of the 238 U decay series showed the existence of disequilibrium. Relationships between the disequilibrium data and the associated geology and soil types were investigated. (author)

SoilEffects – start characterization of the experimental soil

OpenAIRE

Løes, Anne-Kristin; Johansen, Anders; Pommeresche, Reidun; Riley, Hugh

2013-01-01

This report describes the establishment, experimental plan and initial soil characteristics of the field experiment linked to the project “Effects of anaerobically digested manure on soil fertility - establishment of a long-term study under Norwegian conditions” (SoilEffects, 2010-14). The aim of the SoilEffects project is to identify potential risks and benefits for soil fertility when animal manure is anaerobically digested for biogas production. The field experiment was established on...

A Method to Identify Nucleolus-Associated Chromatin Domains (NADs).

Science.gov (United States)

Carpentier, Marie-Christine; Picart-Picolo, Ariadna; Pontvianne, Frédéric

2018-01-01

The nuclear context needs to be taken into consideration to better understand the mechanisms shaping the epigenome and its organization, and therefore its impact on gene expression. For example, in Arabidopsis, heterochromatin is preferentially localized at the nuclear and the nucleolar periphery. Although chromatin domains associating with the nuclear periphery remain to be identified in plant cells, Nucleolus Associated chromatin Domains (NADs) can be identified thanks to a protocol allowing the isolation of pure nucleoli. We describe here the protocol enabling the identification of NADs in Arabidopsis. Providing the transfer of a nucleolus marker as described here in other crop species, this protocol is broadly applicable.

Environmental association of iron minerals and iron concentrations ...

African Journals Online (AJOL)

Environmental association of iron (Fe) minerals and Fe concentrations in soils close to the Kgwakgwe Mn oxide ore abandoned mine, Botswana are investigated in this study. Four hundred soil samples were obtained from a 4 km2 area close to the abandoned mine. The Fe minerals in the soil samples were identified by ...

Telephone survey to investigate relationships between onychectomy or onychectomy technique and house soiling in cats.

Science.gov (United States)

Gerard, Amanda F; Larson, Mandy; Baldwin, Claudia J; Petersen, Christine

2016-09-15

OBJECTIVE To determine whether associations existed between onychectomy or onychectomy technique and house soiling in cats. DESIGN Cross-sectional study. SAMPLE 281 owners of 455 cats in Polk County, Iowa, identified via a list of randomly selected residential phone numbers of cat owners in that region. PROCEDURES A telephone survey was conducted to collect information from cat owners on factors hypothesized a priori to be associated with house soiling, including cat sex, reproductive status, medical history, and onychectomy history. When cats that had undergone onychectomy were identified, data were collected regarding the cat's age at the time of the procedure and whether a carbon dioxide laser (CDL) had been used. Information on history of house soiling behavior (urinating or defecating outside the litter box) was also collected. RESULTS Onychectomy technique was identified as a risk factor for house soiling. Cats for which a non-CDL technique was used had a higher risk of house soiling than cats for which the CDL technique was used. Cats that had undergone onychectomy and that lived in a multicat (3 to 5 cats) household were more than 3 times as likely to have house soiled as were single-housed cats with intact claws. CONCLUSIONS AND CLINICAL RELEVANCE Results of this cross-sectional study suggested that use of the CDL technique for onychectomy could decrease the risk of house soiling by cats relative to the risk associated with other techniques. This and other findings can be used to inform the decisions of owners and veterinarians when considering elective onychectomy for cats.

Phytoremediation of Metal Contaminated Soil Using Willow: Exploiting Plant-Associated Bacteria to Improve Biomass Production and Metal Uptake.

Science.gov (United States)

Janssen, Jolien; Weyens, Nele; Croes, Sarah; Beckers, Bram; Meiresonne, Linda; Van Peteghem, Pierre; Carleer, Robert; Vangronsveld, Jaco

2015-01-01

Short rotation coppice (SRC) of willow and poplar is proposed for economic valorization and concurrently as remediation strategy for metal contaminated land in northeast-Belgium. However, metal phytoextraction appears insufficient to effectuate rapid reduction of soil metal contents. To increase both biomass production and metal accumulation of SRC, two strategies are proposed: (i) in situ selection of the best performing clones and (ii) bioaugmentation of these clones with beneficial plant-associated bacteria. Based on field data, two experimental willow clones, a Salix viminalis and a Salix alba x alba clone, were selected. Compared to the best performing commercial clones, considerable increases in stem metal extraction were achieved (up to 74% for Cd and 91% for Zn). From the selected clones, plant-associated bacteria were isolated and identified. All strains were subsequently screened for their plant growth-promoting and metal uptake enhancing traits. Five strains were selected for a greenhouse inoculation experiment with the selected clones planted in Cd-Zn-Pb contaminated soil. Extraction potential tended to increase after inoculation of S. viminalis plants with a Rahnella sp. strain due to a significantly increased twig biomass. However, although bacterial strains showing beneficial traits in vitro were used for inoculation, increments in extraction potential were not always observed.

A meta-analysis of genome-wide association studies identifies novel variants associated with osteoarthritis of the hip

DEFF Research Database (Denmark)

Evangelou, Evangelos; Kerkhof, Hanneke J; Styrkarsdottir, Unnur

2014-01-01

Osteoarthritis (OA) is the most common form of arthritis with a clear genetic component. To identify novel loci associated with hip OA we performed a meta-analysis of genome-wide association studies (GWAS) on European subjects.......Osteoarthritis (OA) is the most common form of arthritis with a clear genetic component. To identify novel loci associated with hip OA we performed a meta-analysis of genome-wide association studies (GWAS) on European subjects....

Feedbacks Between Soil Structure and Microbial Activities in Soil

Science.gov (United States)

Bailey, V. L.; Smith, A. P.; Fansler, S.; Varga, T.; Kemner, K. M.; McCue, L. A.

2017-12-01

Soil structure provides the physical framework for soil microbial habitats. The connectivity and size distribution of soil pores controls the microbial access to nutrient resources for growth and metabolism. Thus, a crucial component of soil research is how a soil's three-dimensional structure and organization influences its biological potential on a multitude of spatial and temporal scales. In an effort to understand microbial processes at scale more consistent with a microbial community, we have used soil aggregates as discrete units of soil microbial habitats. Our research has shown that mean pore diameter (x-ray computed tomography) of soil aggregates varies with the aggregate diameter itself. Analyzing both the bacterial composition (16S) and enzyme activities of individual aggregates showed significant differences in the relative abundances of key members the microbial communities associated with high enzyme activities compared to those with low activities, even though we observed no differences in the size of the biomass, nor in the overall richness or diversity of these communities. We hypothesize that resources and substrates have stimulated key populations in the aggregates identified as highly active, and as such, we conducted further research that explored how such key populations (i.e. fungal or bacterial dominated populations) alter pathways of C accumulation in aggregate size domains and microbial C utilization. Fungi support and stabilize soil structure through both physical and chemical effects of their hyphal networks. In contrast, bacterial-dominated communities are purported to facilitate micro- and fine aggregate stabilization. Here we quantify the direct effects fungal versus bacterial dominated communities on aggregate formation (both the rate of aggregation and the quality, quantity and distribution of SOC contained within aggregates). A quantitative understanding of the different mechanisms through which fungi or bacteria shape aggregate

Influence of iron redox cycling on organo-mineral associations in Arctic tundra soil

Science.gov (United States)

Herndon, Elizabeth; AlBashaireh, Amineh; Singer, David; Roy Chowdhury, Taniya; Gu, Baohua; Graham, David

2017-06-01

Arctic tundra stores large quantities of soil organic matter under varying redox conditions. As the climate warms, these carbon reservoirs are susceptible to increased rates of decomposition and release to the atmosphere as the greenhouse gases carbon dioxide (CO2) and methane (CH4). Geochemical interactions between soil organic matter and minerals influence decomposition in many environments but remain poorly understood in Arctic tundra systems and are not considered in decomposition models. The accumulation of iron (Fe) oxyhydroxides and organo-iron precipitates at redox interfaces may be particularly important for carbon cycling given that ferric iron [Fe(III)] species can enhance decomposition by serving as terminal electron acceptors in anoxic soils or inhibit microbial decomposition by binding organic molecules. Here, we examine chemical properties of solid-phase Fe and organic matter in organic and mineral horizons within the seasonally thawed active layer of Arctic tundra on the North Slope of Alaska. Spectroscopic techniques, including micro-X-ray fluorescence (μXRF) mapping, micro-X-ray absorption near-edge structure (μXANES) spectroscopy, and Fourier transform infrared spectroscopy (FTIR), were coupled with chemical sequential extractions and physical density fractionations to evaluate the spatial distribution and speciation of Fe-bearing phases and associated organic matter in soils. Organic horizons were enriched in poorly crystalline and crystalline iron oxides, and approximately 60% of total Fe stored in organic horizons was calculated to derive from upward translocation from anoxic mineral horizons. Ferrihydrite and goethite were present as coatings on mineral grains and plant debris, and in aggregates with clays and particulate organic matter. Minor amounts of ferrous iron [Fe(II)] were present in iron sulfides (i.e., pyrite and greigite) in mineral horizon soils and iron phosphates (vivianite) in organic horizons. Concentrations of organic

Association between risk of birth defects occurring level and arsenic concentrations in soils of Lvliang, Shanxi province of China

International Nuclear Information System (INIS)

Wu, Jilei; Zhang, Chaosheng; Pei, Lijun; Chen, Gong; Zheng, Xiaoying

2014-01-01

The risk of birth defects is generally accredited with genetic factors, environmental causes, but the contribution of environmental factors to birth defects is still inconclusive. With the hypothesis of associations of geochemical features distribution and birth defects risk, we collected birth records and measured the chemical components in soil samples from a high prevalence area of birth defects in Shanxi province, China. The relative risk levels among villages were estimated with conditional spatial autoregressive model and the relationships between the risk levels of the villages and the 15 types of chemical elements concentration in the cropland and woodland soils were explored. The results revealed that the arsenic levels in cropland soil showed a significant association with birth defects occurring risk in this area, which is consistent with existing evidences of arsenic as a teratogen and warrants further investigation on arsenic exposure routine to birth defect occurring risk. - Highlights: • Association between soil geochemical components and birth defects risk was proposed. • The relative risk difference among villages were estimated with CAR model. • Arsenic levels in cropland showed a significant association to birth defect risk. • The finding warrants further investigation on arsenic as a teratogen. - The difference of risk levels estimate by spatial statistics to birth defect significantly associated with arsenic levels in cropland soils warrants further investigation

Soil structural behaviour of flooded soils

International Nuclear Information System (INIS)

Taboada, M.A.

2004-01-01

The objectives of this presentation are to: identify factors determining of the structural behaviour of flooded soils, as compared to those acting in upland soils; analyse the influence of reductive processes on aggregate stabilising agents; discuss mechanisms of structural deterioration and recovery during the flooding-drying cycle, on the basis of a case study: cattle trampling effects in the flooding Pampa of Argentina. Flooded soils, now known as Hydric soils, are characteristic of wetlands and irrigated fields cropped to rice (paddy soils). In them, water covers the soil, or is present either at or near the surface of the soil all year or for varying periods of time during the year. Hydric soils belong to different taxa of the FAO-UNESCO Soil Map (2000). Fluvisols, Planosols and Gleysols are widespread distributed in the globe. The generation of redoximorphic features is due to different causes in each of them. Fluvisols are covered part of the year by surface water from river overflows; Planosols are soils having an impervious Bt horizon, supporting perched water during short periods; and Gleysols are soils affected by stagnant water tables during long periods

Probability Models Based on Soil Properties for Predicting Presence-Absence of Pythium in Soybean Roots.

Science.gov (United States)

Zitnick-Anderson, Kimberly K; Norland, Jack E; Del Río Mendoza, Luis E; Fortuna, Ann-Marie; Nelson, Berlin D

2017-10-01

Associations between soil properties and Pythium groups on soybean roots were investigated in 83 commercial soybean fields in North Dakota. A data set containing 2877 isolates of Pythium which included 26 known spp. and 1 unknown spp. and 13 soil properties from each field were analyzed. A Pearson correlation analysis was performed with all soil properties to observe any significant correlation between properties. Hierarchical clustering, indicator spp., and multi-response permutation procedures were used to identify groups of Pythium. Logistic regression analysis using stepwise selection was employed to calculate probability models for presence of groups based on soil properties. Three major Pythium groups were identified and three soil properties were associated with these groups. Group 1, characterized by P. ultimum, was associated with zinc levels; as zinc increased, the probability of group 1 being present increased (α = 0.05). Pythium group 2, characterized by Pythium kashmirense and an unknown Pythium sp., was associated with cation exchange capacity (CEC) (α < 0.05); as CEC increased, these spp. increased. Group 3, characterized by Pythium heterothallicum and Pythium irregulare, were associated with CEC and calcium carbonate exchange (CCE); as CCE increased and CEC decreased, these spp. increased (α = 0.05). The regression models may have value in predicting pathogenic Pythium spp. in soybean fields in North Dakota and adjacent states.

Genome-wide association study identifies multiple risk loci for chronic lymphocytic leukemia

OpenAIRE

Berndt, S.I.; Skibola, C.F.; Joseph, V.; Camp, N.J.; Nieters, A.; Wang, Z.; Cozen, W.; Monnereau, A.; Wang, S.S.; Kelly, R.S.; Lan, Q.; Teras, L.R.; Chatterjee, N.; Chung, C.C.; Yeager, M.

2013-01-01

Genome-wide association studies (GWAS) have previously identified 13 loci associated with risk of chronic lymphocytic leukemia or small lymphocytic lymphoma (CLL). To identify additional CLL susceptibility loci, we conducted the largest meta-analysis for CLL thus far, including four GWAS with a total of 3,100 individuals with CLL (cases) and 7,667 controls. In the meta-analysis, we identified ten independent associated SNPs in nine new loci at 10q23.31 (ACTA2 or FAS (ACTA2/FAS), P = 1.22 × 10...

Ecological and human health risks associated with abandoned gold mine tailings contaminated soil.

Directory of Open Access Journals (Sweden)

Veronica Mpode Ngole-Jeme

Full Text Available Gold mining is a major source of metal and metalloid emissions into the environment. Studies were carried out in Krugersdorp, South Africa, to evaluate the ecological and human health risks associated with exposure to metals and metalloids in mine tailings contaminated soils. Concentrations of arsenic (As, cadmium (Cd, chromium (Cr, cobalt (Co, copper (Cu, lead (Pb, manganese (Mn, nickel (Ni, and zinc (Zn in soil samples from the area varied with the highest contamination factors (expressed as ratio of metal or metalloid concentration in the tailings contaminated soil to that of the control site observed for As (3.5x102, Co (2.8x102 and Ni (1.1x102. Potential ecological risk index values for metals and metalloids determined from soil metal and metalloid concentrations and their respective risk factors were correspondingly highest for As (3.5x103 and Co (1.4x103, whereas Mn (0.6 presented the lowest ecological risk. Human health risk was assessed using Hazard Quotient (HQ, Chronic Hazard Index (CHI and carcinogenic risk levels, where values of HQ > 1, CHI > 1 and carcinogenic risk values > 1×10-4 represent elevated risks. Values for HQ indicated high exposure-related risk for As (53.7, Cr (14.8, Ni (2.2, Zn (2.64 and Mn (1.67. Children were more at risk from heavy metal and metalloid exposure than adults. Cancer-related risks associated with metal and metalloid exposure among children were also higher than in adults with cancer risk values of 3×10-2 and 4×10-2 for As and Ni respectively among children, and 5×10-3 and 4×10-3 for As and Ni respectively among adults. There is significant potential ecological and human health risk associated with metal and metalloid exposure from contaminated soils around gold mine tailings dumps. This could be a potential contributing factor to a setback in the health of residents in informal settlements dominating this mining area as the immune systems of some of these residents are already compromised by high

Gene-based Association Approach Identify Genes Across Stress Traits in Fruit Flies

DEFF Research Database (Denmark)

Rohde, Palle Duun; Edwards, Stefan McKinnon; Sarup, Pernille Merete

Identification of genes explaining variation in quantitative traits or genetic risk factors of human diseases requires both good phenotypic- and genotypic data, but also efficient statistical methods. Genome-wide association studies may reveal association between phenotypic variation and variation...... approach grouping variants accordingly to gene position, thus lowering the number of statistical tests performed and increasing the probability of identifying genes with small to moderate effects. Using this approach we identify numerous genes associated with different types of stresses in Drosophila...... melanogaster, but also identify common genes that affects the stress traits....

Modelling soil erosion and associated sediment yield for small headwater catchments of the Daugava spillway valley, Latvia

Science.gov (United States)

Soms, Juris

2015-04-01

The accelerated soil erosion by water and associated fine sediment transfer in river catchments has various negative environmental as well as economic implications in many EU countries. Hence, the scientific community had recognized and ranked soil erosion among other environmental problems. Moreover, these matters might worsen in the near future in the countries of the Baltic Region, e.g. Latvia considering the predicted climate changes - more precisely, the increase in precipitation and shortening of return periods of extreme rainfall events, which in their turn will enable formation of surface runoff, erosion and increase of sediment delivery to receiving streams. Thereby it is essential to carry out studies focused on these issues in order to obtain reliable data in terms of both scientific and applied aims, e.g. environmental protection and sustainable management of soils as well as water resources. During the past decades, many of such studies of soil erosion had focused on the application of modelling techniques implemented in a GIS environment, allowing indirectly to estimate the potential soil losses and to quantify related sediment yield. According to research results published in the scientific literature, this approach currently is widely used all over the world, and most of these studies are based on the USLE model and its revised and modified versions. Considering that, the aim of this research was to estimate soil erosion rates and sediment transport under different hydro-climatic conditions in south-eastern Latvia by application of GIS-based modelling. For research purposes, empirical RUSLE model and ArcGIS software were applied, and five headwater catchments were chosen as model territories. The selected catchments with different land use are located in the Daugava spillway valley, which belongs to the upper Daugava River drainage basin. Considering lithological diversity of Quaternary deposits, a variety of soils can be identified, i.e., Stagnic

Multielement geochemistry identifies the spatial pattern of soil and sediment contamination in an urban parkland, Western Australia.

Science.gov (United States)

Rate, Andrew W

2018-06-15

Urban environments are dynamic and highly heterogeneous, and multiple additions of potential contaminants are likely on timescales which are short relative to natural processes. The likely sources and location of soil or sediment contamination in urban environment should therefore be detectable using multielement geochemical composition combined with rigorously applied multivariate statistical techniques. Soil, wetland sediment, and street dust was sampled along intersecting transects in Robertson Park in metropolitan Perth, Western Australia. Samples were analysed for near-total concentrations of multiple elements (including Cd, Ce, Co, Cr, Cu, Fe, Gd, La, Mn, Nd, Ni, Pb, Y, and Zn), as well as pH, and electrical conductivity. Samples at some locations within Robertson Park had high concentrations of potentially toxic elements (Pb above Health Investigation Limits; As, Ba, Cu, Mn, Ni, Pb, V, and Zn above Ecological Investigation Limits). However, these concentrations carry low risk due to the main land use as recreational open space, the low proportion of samples exceeding guideline values, and a tendency for the highest concentrations to be located within the less accessible wetland basin. The different spatial distributions of different groups of contaminants was consistent with different inputs of contaminants related to changes in land use and technology over the history of the site. Multivariate statistical analyses reinforced the spatial information, with principal component analysis identifying geochemical associations of elements which were also spatially related. A multivariate linear discriminant model was able to discriminate samples into a-priori types, and could predict sample type with 84% accuracy based on multielement composition. The findings suggest substantial advantages of characterising a site using multielement and multivariate analyses, an approach which could benefit investigations of other sites of concern. Copyright © 2018 Elsevier B

SOIL WASHING TREATABILITY TESTS FOR PESTICIDE- CONTAMINATED SOIL

Science.gov (United States)

The 1987 Sand Creek Operable Unit 5 record of decision (ROD) identified soil washing as the selected technology to remediate soils contaminated with high levels of organochlorine pesticides, herbicides, and metals. Initial treatability tests conducted to assess the applicability...

Sorption and degradation of wastewater-associated pharmaceuticals and personal care products in agricultural soils and sediment.

Science.gov (United States)

Zhang, Ting; Wu, Bo; Sun, Na; Ye, Yong; Chen, Huaixia

2013-01-01

Pharmaceuticals and personal care products (PPCPs) have drawn popular concerns recently as an emerging class of aquatic contaminants. In this study, adsorption and degradation of four selected PPCPs, metronidazole, tinidazole, caffeine and chloramphenicol, have been investigated in the laboratory using two agricultural soils in China and sediment from Changjiang River. Adsorption tests using a batch equilibrium method demonstrated that adsorption of all tested chemicals in soils could be well described with Freundlich equation, and their adsorption affinity on soil followed the order of chloramphenicol > caffeine > tinidazole > metronidazole. Generally, higher Kf value was associated with soils which had higher organic matter contents (except for caffeine acid in this study). Degradation of selected PPCPs in soils generally followed first-order exponential decay kinetics, and half-lives ranging from 0.97 to 10.21 d. Sterilization generally decreased the degradation rates, indicating that microbial activity played a significant role in the degradation in soils. The degradation rate constant decreased with increasing initial chemical concentrations in soil, implying that the microbial activity was inhibited with high chemical loading levels.

A methodological approach for the identification of arsenic bearing phases in polluted soils

International Nuclear Information System (INIS)

Matera, V.; Le Hecho, I.; Laboudigue, A.; Thomas, P.; Tellier, S.; Astruc, M.

2003-01-01

Arsenic in the three polluted soils is mainly associated with neoformed amorphous iron (hydr)oxides. - A methodological approach is used to characterize arsenic pollution in three soils and to determine arsenic speciation and association with solid phases in three polluted soils. HPLC-ICP-MS was used for arsenic speciation analysis, SEM-EDS and XRD for physical characterization of arsenic pollution, and sequential chemical extractions to identify arsenic distribution. Arsenic was concentrated in the finest size fractions also enriched in iron and aluminium. Total arsenic concentrations in soils are close to 1%. Arsenic was mainly present as arsenate, representing more than 90% of total arsenic. No crystallised arsenic minerals were detected by XRD analysis. SEM-EDS observations indicated arsenic/iron associations. Modified Tessier's procedure showed that arsenic was mainly extracted from amorphous iron oxide phase. The results of this methodological approach lead to predict the formation of iron arsenates in the case of one of the studied soils while arsenic sorption on iron amorphous (hydr)oxides seemed to be the determinant in the two other soils

Viral impacts on microbial carbon cycling in thawing permafrost soils

Science.gov (United States)

Trubl, G. G.; Roux, S.; Bolduc, B.; Jang, H. B.; Emerson, J. B.; Solonenko, N.; Li, F.; Solden, L. M.; Vik, D. R.; Wrighton, K. C.; Saleska, S. R.; Sullivan, M. B.; Rich, V. I.

2017-12-01

Permafrost contains 30-50% of global soil carbon (C) and is rapidly thawing. While the fate of this C is unknown, it will be shaped in part by microbes and their associated viruses, which modulate host activities via mortality and metabolic control. To date, viral research in soils has been outpaced by that in aquatic environments, due to the technical challenges of accessing viruses as well as the dramatic physicochemical heterogeneity in soils. Here, we describe advances in soil viromics from our research on permafrost-associated soils, and their implications for associated terrestrial C cycling. First, we optimized viral resuspension-DNA extraction methods for a range of soil types. Second, we applied cutting-edge viral-specific informatics methods to recover viral populations, define their gene content, connect them to potential hosts, and analyze their relationships to environmental parameters. A total of 781 viral populations were recovered from size-fractionated virus samples of three soils along a permafrost thaw gradient. Ecological analyses revealed endemism as recovered viral populations were largely unique to each habitat and unlike those in aquatic communities. Genome- and network-based classification assigned these viruses into 226 viral clusters (VCs; genus-level taxonomy), 55% of which were novel. This increases the number of VCs by a third and triples the number of soil viral populations in the RefSeq database (currently contains 256 VCs and 316 soil viral populations). Genomic analyses revealed 85% of the genes were functionally unknown, though 5% of the annotatable genes contained C-related auxiliary metabolic genes (AMGs; e.g. glycoside hydrolases). Using sequence-based features and microbial population genomes, we were able to in silico predict hosts for 30% of the viral populations. The identified hosts spanned 3 phyla and 6 genera but suggested these viruses have species-specific host ranges as >80% of hosts for a given virus were in the same

Using Upland Rice Root Traits to Identify N Use Efficient Genotypes for Limited Soil Nutrient Conditions

Energy Technology Data Exchange (ETDEWEB)

Traore, K.; Traore, O. [INERA / Station de Farakoba, Bobo-Dioulasso (Burkina Faso); Bado, V. B. [Africa Rice Center (AfricaRice), Saint Louis (Senegal)

2013-11-15

Crop production in the Sahelian countries of Africa is limited by many factors. The most important are low potential yields of local varieties, low inherent soil fertility and low applications of external inputs (organic and mineral fertilizers). A field experiment was conducted from 2007 to 2008 with the objective to develop and validate screening protocols for plant traits that enhance N acquisition and utilization in upland rice grown in low N soils of two hundred (200) upland rice (Oryza sativa L.) genotypes from WAB, NERICA, CNA, CNAX, IRAT and IR lines. An experiment in small pots was carried out in a greenhouse of Farakoba research center. The pots were filled with a sandy soil and upland rice genotypes were grown during three weeks, harvested and studied for their root characteristics (seminal root length, adventitious root number, lateral root length and number and roots hair density). The small pot method was reliable for root trait characterisation at the seedling stage. A large variability among genotypes was exhibited for the root characteristics. The variability was larger within the NERICA and WAB lines compared to the other lines. The length of the seminal roots varied from 10 to 40 cm, the lateral root number ranged between 3 and 15 and the number of adventitious roots varied between 2 and 7. The selected root traits can be used to identify high nutrients and water use efficient genotypes. (author)

Combination of soil classification and some selected soil properties ...

African Journals Online (AJOL)

The advantage in the combined use of soil classification and top soil analysis for explaining crop yield variation was examined. Soil properties and yields of maize (Zea mays L) on different soil types were measured on farmers' fields for 2 years. Yield prediction improved from 2 per cent at the Order and Association levels to ...

Adaptation of Regional Representative Soil Project and Soil Judging for Cameroon

Science.gov (United States)

Che, Celestine Akuma

2013-01-01

Representative regional soils have agricultural, cultural, economic, environmental, and historical importance to Cameroon. Twenty seven regional representative soils have been identified in Cameroon. A set of laboratory exercises, assignments and exam questions have been developed utilizing the Regional Representative Soil Project (RRSP) that…

Assessment the effect of homogenized soil on soil hydraulic properties and soil water transport

Science.gov (United States)

Mohawesh, O.; Janssen, M.; Maaitah, O.; Lennartz, B.

2017-09-01

Soil hydraulic properties play a crucial role in simulating water flow and contaminant transport. Soil hydraulic properties are commonly measured using homogenized soil samples. However, soil structure has a significant effect on the soil ability to retain and to conduct water, particularly in aggregated soils. In order to determine the effect of soil homogenization on soil hydraulic properties and soil water transport, undisturbed soil samples were carefully collected. Five different soil structures were identified: Angular-blocky, Crumble, Angular-blocky (different soil texture), Granular, and subangular-blocky. The soil hydraulic properties were determined for undisturbed and homogenized soil samples for each soil structure. The soil hydraulic properties were used to model soil water transport using HYDRUS-1D.The homogenized soil samples showed a significant increase in wide pores (wCP) and a decrease in narrow pores (nCP). The wCP increased by 95.6, 141.2, 391.6, 3.9, 261.3%, and nCP decreased by 69.5, 10.5, 33.8, 72.7, and 39.3% for homogenized soil samples compared to undisturbed soil samples. The soil water retention curves exhibited a significant decrease in water holding capacity for homogenized soil samples compared with the undisturbed soil samples. The homogenized soil samples showed also a decrease in soil hydraulic conductivity. The simulated results showed that water movement and distribution were affected by soil homogenizing. Moreover, soil homogenizing affected soil hydraulic properties and soil water transport. However, field studies are being needed to find the effect of these differences on water, chemical, and pollutant transport under several scenarios.

Toxicity of pesticides associated with potato production, including soil fumigants, to snapping turtle eggs (Chelydra serpentina).

Science.gov (United States)

de Solla, Shane Raymond; Palonen, Kimberley Elizabeth; Martin, Pamela Anne

2014-01-01

Turtles frequently oviposit in soils associated with agriculture and, thus, may be exposed to pesticides or fertilizers. The toxicity of a pesticide regime that is used for potato production in Ontario on the survivorship of snapping turtle (Chelydra serpentina) eggs was evaluated. The following treatments were applied to clean soil: 1) a mixture of the pesticides chlorothalonil, S-metolachlor, metribuzin, and chlorpyrifos, and 2) the soil fumigant metam sodium. Turtle eggs were incubated in soil in outdoor plots in which these mixtures were applied at typical and higher field application rates, where the eggs were subject to ambient temperature and weather conditions. The pesticide mixture consisting of chlorothalonil, S-metolachlor, metribuzin, and chlorpyrifos did not affect survivorship, deformities, or body size at applications up to 10 times the typical field application rates. Hatching success ranged between 87% and 100% for these treatments. Metam sodium was applied at 0.1¯ times, 0.3¯ times, 1 times, and 3 times field application rates. Eggs exposed to any application of metam sodium had 100% mortality. At typical field application rates, the chemical regime associated with potato production does not appear to have any detrimental impacts on turtle egg development, except for the use of the soil fumigant metam sodium, which is highly toxic to turtle eggs at the lowest recommended application rate. © 2013 SETAC.

Evidence of novel plant-species specific ammonia oxidizing bacterial clades in acidic South African fynbos soils

CSIR Research Space (South Africa)

Ramond, JB

2015-02-01

Full Text Available identified in a wide range of natural (e.g. soils, sediments, estuarine, and freshwaters) and man created or impacted habitats (e.g. wastewater treatment plants and agricultural soils). However, little is known on the plant-species association of AOBs...

Systematic Evaluation of Pleiotropy Identifies 6 Further Loci Associated With Coronary Artery Disease

NARCIS (Netherlands)

Webb, Thomas R.; Erdmann, Jeanette; Stirrups, Kathleen E.; Stitziel, Nathan O.; Masca, Nicholas G. D.; Jansen, Henning; Kanoni, Stavroula; Nelson, Christopher P.; Ferrario, Paola G.; König, Inke R.; Eicher, John D.; Johnson, Andrew D.; Hamby, Stephen E.; Betsholtz, Christer; Ruusalepp, Arno; Franzén, Oscar; Schadt, Eric E.; Björkegren, Johan L. M.; Weeke, Peter E.; Auer, Paul L.; Schick, Ursula M.; Lu, Yingchang; Zhang, He; Dube, Marie-Pierre; Goel, Anuj; Farrall, Martin; Peloso, Gina M.; Won, Hong-Hee; Do, Ron; van Iperen, Erik; Kruppa, Jochen; Mahajan, Anubha; Scott, Robert A.; Willenborg, Christina; Braund, Peter S.; van Capelleveen, Julian C.; Doney, Alex S. F.; Donnelly, Louise A.; Asselta, Rosanna; Merlini, Pier A.; Duga, Stefano; Marziliano, Nicola; Denny, Josh C.; Shaffer, Christian; El-Mokhtari, Nour Eddine; Franke, Andre; Heilmann, Stefanie; Hengstenberg, Christian; Hoffmann, Per; Holmen, Oddgeir L.; Hveem, Kristian; Jansson, Jan-Håkan; Jöckel, Karl-Heinz; Kessler, Thorsten; Kriebel, Jennifer; Laugwitz, Karl L.; Marouli, Eirini; Martinelli, Nicola; McCarthy, Mark I.; van Zuydam, Natalie R.; Meisinger, Christa; Esko, Tõnu; Mihailov, Evelin; Escher, Stefan A.; Alver, Maris; Moebus, Susanne; Morris, Andrew D.; Virtamo, Jarma; Nikpay, Majid; Olivieri, Oliviero; Provost, Sylvie; AlQarawi, Alaa; Robertson, Neil R.; Akinsansya, Karen O.; Reilly, Dermot F.; Vogt, Thomas F.; Yin, Wu; Asselbergs, Folkert W.; Kooperberg, Charles; Jackson, Rebecca D.; Stahl, Eli; Müller-Nurasyid, Martina; Strauch, Konstantin; Varga, Tibor V.; Waldenberger, Melanie; Zeng, Lingyao; Chowdhury, Rajiv; Salomaa, Veikko; Ford, Ian; Jukema, J. Wouter; Amouyel, Philippe; Kontto, Jukka; Nordestgaard, Børge G.; Ferrières, Jean; Saleheen, Danish; Sattar, Naveed; Surendran, Praveen; Wagner, Aline; Young, Robin; Howson, Joanna M. M.; Butterworth, Adam S.; Danesh, John; Ardissino, Diego; Bottinger, Erwin P.; Erbel, Raimund; Franks, Paul W.; Girelli, Domenico; Hall, Alistair S.; Hovingh, G. Kees; Kastrati, Adnan; Lieb, Wolfgang; Meitinger, Thomas; Kraus, William E.; Shah, Svati H.; McPherson, Ruth; Orho-Melander, Marju; Melander, Olle; Metspalu, Andres; Palmer, Colin N. A.; Peters, Annette; Rader, Daniel J.; Reilly, Muredach P.; Loos, Ruth J. F.; Reiner, Alex P.; Roden, Dan M.; Tardif, Jean-Claude; Thompson, John R.; Wareham, Nicholas J.; Watkins, Hugh; Willer, Cristen J.; Samani, Nilesh J.; Schunkert, Heribert; Deloukas, Panos; Kathiresan, Sekar

2017-01-01

Genome-wide association studies have so far identified 56 loci associated with risk of coronary artery disease (CAD). Many CAD loci show pleiotropy; that is, they are also associated with other diseases or traits. This study sought to systematically test if genetic variants identified for non-CAD

Genome-wide association analyses identify 18 new loci associated with serum urate concentrations

NARCIS (Netherlands)

Kottgen, A.; Albrecht, E.; Teumer, A.; Vitart, V.; Krumsiek, J.; Hundertmark, C.; Pistis, G.; Ruggiero, D.; O'Seaghdha, C.M.; Haller, T.; Yang, Q.; Johnson, A.D.; Kutalik, Z.; Smith, A.V.; Shi, J.L.; Struchalin, M.; Middelberg, R.P.S.; Brown, M.J.; Gaffo, A.L.; Pirastu, N.; Li, G.; Hayward, C.; Zemunik, T.; Huffman, J.; Yengo, L.; Zhao, J.H.; Demirkan, A.; Feitosa, M.F.; Liu, X.; Malerba, G.; Lopez, L.M.; van der Harst, P.; Li, X.Z.; Kleber, M.E.; Hicks, A.A.; Nolte, I.M.; Johansson, A.; Murgia, F.; Wild, S.H.; Bakker, S.J.L.; Peden, J.F.; Dehghan, A.; Steri, M.; Tenesa, A.; Lagou, V.; Salo, P.; Mangino, M.; Rose, L.M.; Lehtimaki, T.; Woodward, O.M.; Okada, Y.; Tin, A.; Muller, C.; Oldmeadow, C.; Putku, M.; Czamara, D.; Kraft, P.; Frogheri, L.; Thun, G.A.; Grotevendt, A.; Gislason, G.K.; Harris, T.B.; Launer, L.J.; McArdle, P.; Shuldiner, A.R.; Boerwinkle, E.; Coresh, J.; Schmidt, H.; Schallert, M.; Martin, N.G.; Montgomery, G.W.; Kubo, M.; Nakamura, Y.; Tanaka, T.; Munroe, P.B.; Samani, N.J.; Jacobs, D.R.; Liu, K.; d'Adamo, P.; Ulivi, S.; Rotter, J.I.; Psaty, B.M.; Vollenweider, P.; Waeber, G.; Campbell, S.; Devuyst, O.; Navarro, P.; Kolcic, I.; Hastie, N.; Balkau, B.; Froguel, P.; Esko, T.; Salumets, A.; Khaw, K.T.; Langenberg, C.; Wareham, N.J.; Isaacs, A.; Kraja, A.; Zhang, Q.Y.; Penninx, B.W.J.H.; Smit, J.H.; Bochud, M.; Gieger, C.

2013-01-01

Elevated serum urate concentrations can cause gout, a prevalent and painful inflammatory arthritis. By combining data from >140,000 individuals of European ancestry within the Global Urate Genetics Consortium (GUGC), we identified and replicated 28 genome-wide significant loci in association with

Genome-wide association analyses identify 18 new loci associated with serum urate concentrations

NARCIS (Netherlands)

Köttgen, Anna; Albrecht, Eva; Teumer, Alexander; Vitart, Veronique; Krumsiek, Jan; Hundertmark, Claudia; Pistis, Giorgio; Ruggiero, Daniela; O'Seaghdha, Conall M; Haller, Toomas; Yang, Qiong; Tanaka, Toshiko; Johnson, Andrew D; Kutalik, Zoltán; Smith, Albert V; Shi, Julia; Struchalin, Maksim; Middelberg, Rita P S; Brown, Morris J; Gaffo, Angelo L; Pirastu, Nicola; Li, Guo; Hayward, Caroline; Zemunik, Tatijana; Huffman, Jennifer; Yengo, Loic; Zhao, Jing Hua; Demirkan, Ayse; Feitosa, Mary F; Liu, Xuan; Malerba, Giovanni; Lopez, Lorna M; van der Harst, Pim; Li, Xinzhong; Kleber, Marcus E; Hicks, Andrew A; Nolte, Ilja M; Johansson, Asa; Murgia, Federico; Bakker, Stephan J L; Lagou, Vasiliki; Bruinenberg, Marcel; Stolk, Ronald P; Penninx, Brenda W; Mateo Leach, Irene; van Gilst, Wiek H; Hillege, Hans L; Wolffenbuttel, Bruce H R; Snieder, Harold; Navis, Gerjan

Elevated serum urate concentrations can cause gout, a prevalent and painful inflammatory arthritis. By combining data from >140,000 individuals of European ancestry within the Global Urate Genetics Consortium (GUGC), we identified and replicated 28 genome-wide significant loci in association with

Intrinsic factors of Peltigera lichens influence the structure of the associated soil bacterial microbiota.

Science.gov (United States)

Leiva, Diego; Clavero-León, Claudia; Carú, Margarita; Orlando, Julieta

2016-11-01

Definition of lichens has evolved from bi(tri)partite associations to multi-species symbioses, where bacteria would play essential roles. Besides, although soil bacterial communities are known to be affected by edaphic factors, when lichens grow upon them these could become less preponderant. We hypothesized that the structure of both the lichen microbiota and the microbiota in the soil underneath lichens is shaped by lichen intrinsic and extrinsic factors. In this work, intrinsic factors corresponded to mycobiont and cyanobiont identities of Peltigera lichens, metabolite diversity and phenoloxidase activity and extrinsic factors involved the site of the forest where lichens grow. Likewise, the genetic and metabolic structure of the lichen and soil bacterial communities were analyzed by fingerprinting. Among the results, metabolite diversity was inversely related to the genetic structure of bacterial communities of lichens and soils, highlighting the far-reaching effect of these substances; while phenoloxidase activity was inversely related to the metabolic structure only of the lichen bacterial microbiota, presuming a more limited effect of the products of these enzymes. Soil bacterial microbiota was different depending on the site and, strikingly, according to the cyanobiont present in the lichen over them, which could indicate an influence of the photobiont metabolism on the availability of soil nutrients. © FEMS 2016. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

Little effects on soil organic matter chemistry of density fractions after seven years of forest soil warming.

Science.gov (United States)

Schnecker, Jörg; Borken, Werner; Schindlbacher, Andreas; Wanek, Wolfgang

2016-12-01

Rising temperatures enhance microbial decomposition of soil organic matter (SOM) and thereby increase the soil CO 2 efflux. Elevated decomposition rates might differently affect distinct SOM pools, depending on their stability and accessibility. Soil fractions derived from density fractionation have been suggested to represent SOM pools with different turnover times and stability against microbial decomposition. To investigate the effect of soil warming on functionally different soil organic matter pools, we here investigated the chemical and isotopic composition of bulk soil and three density fractions (free particulate organic matter, fPOM; occluded particulate organic matter, oPOM; and mineral associated organic matter, MaOM) of a C-rich soil from a long-term warming experiment in a spruce forest in the Austrian Alps. At the time of sampling, the soil in this experiment had been warmed during the snow-free period for seven consecutive years. During that time no thermal adaptation of the microbial community could be identified and CO 2 release from the soil continued to be elevated by the warming treatment. Our results, which included organic carbon content, total nitrogen content, δ 13 C, Δ 14 C, δ 15 N and the chemical composition, identified by pyrolysis-GC/MS, showed no significant differences in bulk soil between warming treatment and control. Surprisingly, the differences in the three density fractions were mostly small and the direction of warming induced change was variable with fraction and soil depth. Warming led to reduced N content in topsoil oPOM and subsoil fPOM and to reduced relative abundance of N-bearing compounds in subsoil MaOM. Further, warming increased the δ 13 C of MaOM at both sampling depths, reduced the relative abundance of carbohydrates while it increased the relative abundance of lignins in subsoil oPOM. As the size of the functionally different SOM pools did not significantly change, we assume that the few and small

Soil and Rhizosphere Populations of Fluorescent Pseudomonas spp. Associated with Field-grown Plants are Affected by Sorghum Genotype

Science.gov (United States)

Sorghum [Sorghum bicolor (L.) Moench] is valued for bioenergy, feed and food. Potential of sorghum genotypes to support differing populations of root- and soil-associated fluorescent Pseudomonas spp. or Fusarium spp., in two soils, was assessed. Pseudomonads and Fusarium spp. were assessed from root...

Uncertainties associated with lacking data for predictions of solid-solution partitioning of metals in soil

International Nuclear Information System (INIS)

Le, T.T. Yen; Hendriks, A. Jan

2014-01-01

Soil properties, i.e., pH and contents of soil organic matter (SOM), dissolved organic carbon (DOC), clay, oxides, and reactive metals, are required inputs to both mechanistic and empirical modeling in assessing metal solid-solution partitioning. Several of these properties are rarely measured in site-specific risk assessment. We compared the uncertainties induced by lacking data on these soil properties in estimating metal soil solution concentrations. The predictions by the Orchestra framework were more sensitive to lacking soil property data than the predictions by the transfer functions. The deviations between soil solution concentrations of Cd, Ni, Zn, Ba, and Co estimated with measured SOM and those estimated with generic SOM by the Orchestra framework were about 10 times larger than the deviations in the predictions by the transfer functions. High uncertainties were induced by lacking data in assessing solid-solution partitioning of oxy-anions like As, Mo, Sb, Se, and V. Deviations associated with lacking data in predicting soil solution concentrations of these metals by the Orchestra framework reached three-to-six orders of magnitude. The solid-solution partitioning of metal cations was strongly influenced by pH and contents of organic matter, oxides, and reactive metals. Deviations of more than two orders of magnitude were frequently observed between the estimates of soil solution concentrations with the generic values of these properties and the estimates based on the measured data. Reliable information on these properties is preferred to be included in the assessment by either the Orchestra framework or transfer functions. - Highlights: • Estimates of metal solid-solution partitioning sensitive to soil property data. • Uncertainty mainly due to lacking reactive metal contents, pH, and organic matter. • Soil solution concentrations of oxy-anions highly influenced by oxide contents. • Clay contents had least effects on solid-solution partitioning

Uncertainties associated with lacking data for predictions of solid-solution partitioning of metals in soil

Energy Technology Data Exchange (ETDEWEB)

Le, T.T. Yen, E-mail: YenLe@science.ru.nl; Hendriks, A. Jan

2014-08-15

Soil properties, i.e., pH and contents of soil organic matter (SOM), dissolved organic carbon (DOC), clay, oxides, and reactive metals, are required inputs to both mechanistic and empirical modeling in assessing metal solid-solution partitioning. Several of these properties are rarely measured in site-specific risk assessment. We compared the uncertainties induced by lacking data on these soil properties in estimating metal soil solution concentrations. The predictions by the Orchestra framework were more sensitive to lacking soil property data than the predictions by the transfer functions. The deviations between soil solution concentrations of Cd, Ni, Zn, Ba, and Co estimated with measured SOM and those estimated with generic SOM by the Orchestra framework were about 10 times larger than the deviations in the predictions by the transfer functions. High uncertainties were induced by lacking data in assessing solid-solution partitioning of oxy-anions like As, Mo, Sb, Se, and V. Deviations associated with lacking data in predicting soil solution concentrations of these metals by the Orchestra framework reached three-to-six orders of magnitude. The solid-solution partitioning of metal cations was strongly influenced by pH and contents of organic matter, oxides, and reactive metals. Deviations of more than two orders of magnitude were frequently observed between the estimates of soil solution concentrations with the generic values of these properties and the estimates based on the measured data. Reliable information on these properties is preferred to be included in the assessment by either the Orchestra framework or transfer functions. - Highlights: • Estimates of metal solid-solution partitioning sensitive to soil property data. • Uncertainty mainly due to lacking reactive metal contents, pH, and organic matter. • Soil solution concentrations of oxy-anions highly influenced by oxide contents. • Clay contents had least effects on solid-solution partitioning

Genome-wide association study identifies 74 loci associated with educational attainment

OpenAIRE

Okbay, Aysu; Beauchamp, Jonathan; Fontana, M.A. (Mark Alan); Lee, James J.; Pers, Tune; Rietveld, C.A. (Cornelius A.); Turley, Patrick; Chen, G.-B. (Guo-Bo); Emilsson, Valur; Meddens, S.F.W. (S. Fleur W.); Oskarsson, S. (Sven); Pickrell, J.K. (Joseph K.); Thom, K. (Kevin); Timshel, P. (Pascal); Vlaming, Ronald

2016-01-01

textabstractEducational attainment is strongly influenced by social and other environmental factors, but genetic factors are estimated to account for at least 20% of the variation across individuals. Here we report the results of a genome-wide association study (GWAS) for educational attainment that extends our earlier discovery sample of 101,069 individuals to 293,723 individuals, and a replication study in an independent sample of 111,349 individuals from the UK Biobank. We identify 74 geno...

Combining land use data acquired from Landsat with soil map data

Science.gov (United States)

Westin, F. C.; Brandner, T. M.

1981-01-01

A method currently used to derive agrophysical units (APUs), i.e., geographical areas having definable/comparable agronomic and physical parameters which reflect a range in agricultural use and management, is discussed with reference to results obtained for South Dakota and an area in China. The method consists of combining agricultural land use data acquired from Landsat with soil map data. The resulting map units are soil associations characterized by cropland use intensity, and they can be used to identify major cropland areas and to develop a rating reflecting the relative potential of the soils in the delineated area for crop production, as well as to update small-scale soil maps.

Introducing BASE: the Biomes of Australian Soil Environments soil microbial diversity database.

Science.gov (United States)

Bissett, Andrew; Fitzgerald, Anna; Meintjes, Thys; Mele, Pauline M; Reith, Frank; Dennis, Paul G; Breed, Martin F; Brown, Belinda; Brown, Mark V; Brugger, Joel; Byrne, Margaret; Caddy-Retalic, Stefan; Carmody, Bernie; Coates, David J; Correa, Carolina; Ferrari, Belinda C; Gupta, Vadakattu V S R; Hamonts, Kelly; Haslem, Asha; Hugenholtz, Philip; Karan, Mirko; Koval, Jason; Lowe, Andrew J; Macdonald, Stuart; McGrath, Leanne; Martin, David; Morgan, Matt; North, Kristin I; Paungfoo-Lonhienne, Chanyarat; Pendall, Elise; Phillips, Lori; Pirzl, Rebecca; Powell, Jeff R; Ragan, Mark A; Schmidt, Susanne; Seymour, Nicole; Snape, Ian; Stephen, John R; Stevens, Matthew; Tinning, Matt; Williams, Kristen; Yeoh, Yun Kit; Zammit, Carla M; Young, Andrew

2016-01-01

Microbial inhabitants of soils are important to ecosystem and planetary functions, yet there are large gaps in our knowledge of their diversity and ecology. The 'Biomes of Australian Soil Environments' (BASE) project has generated a database of microbial diversity with associated metadata across extensive environmental gradients at continental scale. As the characterisation of microbes rapidly expands, the BASE database provides an evolving platform for interrogating and integrating microbial diversity and function. BASE currently provides amplicon sequences and associated contextual data for over 900 sites encompassing all Australian states and territories, a wide variety of bioregions, vegetation and land-use types. Amplicons target bacteria, archaea and general and fungal-specific eukaryotes. The growing database will soon include metagenomics data. Data are provided in both raw sequence (FASTQ) and analysed OTU table formats and are accessed via the project's data portal, which provides a user-friendly search tool to quickly identify samples of interest. Processed data can be visually interrogated and intersected with other Australian diversity and environmental data using tools developed by the 'Atlas of Living Australia'. Developed within an open data framework, the BASE project is the first Australian soil microbial diversity database. The database will grow and link to other global efforts to explore microbial, plant, animal, and marine biodiversity. Its design and open access nature ensures that BASE will evolve as a valuable tool for documenting an often overlooked component of biodiversity and the many microbe-driven processes that are essential to sustain soil function and ecosystem services.

Pasture Management Strategies for Sequestering Soil Carbon - Final Report

Energy Technology Data Exchange (ETDEWEB)

Franzluebbers, Alan J.

2006-03-15

Pasturelands account for 51 of the 212 Mha of privately held grazing land in the USA. Tall fescue is the most important cool-season perennial forage for many beef cattle producers in the humid region of the USA. A fungal endophyte, Neotyphodium coenophialum, infects the majority of tall fescue stands with a mutualistic association. Ergot alkaloids produced by the endophyte have negative impacts on cattle performance. However, there are indications that endophyte infection of tall fescue is a necessary component of productive and persistent pasture ecology. The objectives of this research were to characterize and quantify changes in soil organic carbon and associated soil properties under tall fescue pastures with and without endophyte infection of grass. Pastures with high endophyte infection had greater concentration of soil organic carbon, but lower concentration of biologically active soil carbon than pastures with low endophyte infection. A controlled experiment suggested that endophyte-infected leaf tissue may directly inhibit the activity of soil microorganisms. Carbon forms of soil organic matter were negatively affected and nitrogen forms were positively affected by endophyte addition to soil. The chemical compounds in endophyte-infected tall fescue (ergot alkaloids) that are responsible for animal health disorders were found in soil, suggesting that these chemicals might be persistent in the environment. Future research is needed to determine whether ergot alkaloids or some other chemicals are responsible for increases in soil organic matter. Scientists will be able to use this information to better understand the ecological impacts of animals grazing tall fescue, and possibly to identify and cultivate other similar associations for improving soil organic matter storage. Another experiment suggested that both dry matter production and soil microbial activity could be affected by the endophyte. Sampling of the cumulative effects of 20 years of tall fescue

Models for prediction of soil precompression stress from readily available soil properties

DEFF Research Database (Denmark)

Schjønning, Per; Lamandé, Mathieu

2018-01-01

matric potentials. σpc was estimated from the original stress-strain curves by a novel, numerical method for estimating the stress at maximum curvature, assumingly partitioning the curve into elastic and plastic sections. Multiple regression was used to identify the drivers best describing the variation......Compaction of the subsoil is an almost irreversible damage to the soil resource. Modern machinery exerts high mechanical stresses to the subsoil, and a range of studies report significant effects on soil functions. There is an urgent need for quantitative knowledge of soil strength in order...... to evaluate sustainability of current field traffic. The aim of this study was to identify the most important drivers of soil precompression stress, σpc, and to develop pedotransfer functions for prediction of σpc. We revisited previously published data on σpc for a silty clay loam soil at a range of soil...

Clay-associated organic matter in kaolinitic and smectitic soils

NARCIS (Netherlands)

Wattel-Koekkoek, E.J.W.

2002-01-01

The primary source of soil organic matter is plant debris of all kinds, such as dead roots, leaves and branches that enter into the soil and are then biologically decomposed at variable rates. Organic matter has many different important functions on a local and global scale. Soil organic matter is

Association Analysis Suggests SOD2 as a Newly Identified Candidate Gene Associated With Leprosy Susceptibility.

Science.gov (United States)

Ramos, Geovana Brotto; Salomão, Heloisa; Francio, Angela Schneider; Fava, Vinícius Medeiros; Werneck, Renata Iani; Mira, Marcelo Távora

2016-08-01

Genetic studies have identified several genes and genomic regions contributing to the control of host susceptibility to leprosy. Here, we test variants of the positional and functional candidate gene SOD2 for association with leprosy in 2 independent population samples. Family-based analysis revealed an association between leprosy and allele G of marker rs295340 (P = .042) and borderline evidence of an association between leprosy and alleles C and A of markers rs4880 (P = .077) and rs5746136 (P = .071), respectively. Findings were validated in an independent case-control sample for markers rs295340 (P = .049) and rs4880 (P = .038). These results suggest SOD2 as a newly identified gene conferring susceptibility to leprosy. © The Author 2016. Published by Oxford University Press for the Infectious Diseases Society of America. All rights reserved. For permissions, e-mail journals.permissions@oup.com.

Plant Community and Nitrogen Deposition as Drivers of Alpha and Beta Diversities of Prokaryotes in Reconstructed Oil Sand Soils and Natural Boreal Forest Soils

Science.gov (United States)

Prescott, Cindy E.; Renaut, Sébastien; Terrat, Yves; Grayston, Sue J.

2017-01-01

ABSTRACT The Athabasca oil sand deposit is one of the largest single oil deposits in the world. Following surface mining, companies are required to restore soil-like profiles that can support the previous land capabilities. The objective of this study was to assess whether the soil prokaryotic alpha diversity (α-diversity) and β-diversity in oil sand soils reconstructed 20 to 30 years previously and planted to one of three vegetation types (coniferous or deciduous trees and grassland) were similar to those found in natural boreal forest soils subject to wildfire disturbance. Prokaryotic α-diversity and β-diversity were assessed using massively parallel sequencing of 16S rRNA genes. The β-diversity, but not the α-diversity, differed between reconstructed and natural soils. Bacteria associated with an oligotrophic lifestyle were more abundant in natural forest soils, whereas bacteria associated with a copiotrophic lifestyle were more abundant in reconstructed soils. Ammonia-oxidizing archaea were most abundant in reconstructed soils planted with grasses. Plant species were the main factor influencing α-diversity in natural and in reconstructed soils. Nitrogen deposition, pH, and plant species were the main factors influencing the β-diversity of the prokaryotic communities in natural and reconstructed soils. The results highlight the importance of nitrogen deposition and aboveground-belowground relationships in shaping soil microbial communities in natural and reconstructed soils. IMPORTANCE Covering over 800 km2, land disturbed by the exploitation of the oil sands in Canada has to be restored. Here, we take advantage of the proximity between these reconstructed ecosystems and the boreal forest surrounding the oil sand mining area to study soil microbial community structure and processes in both natural and nonnatural environments. By identifying key characteristics shaping the structure of soil microbial communities, this study improved our understanding of

Soil water management

International Nuclear Information System (INIS)

Nielsen, D.R.; Cassel, D.K.

1984-01-01

The use of radiation and tracer techniques in investigations into soil water management in agriculture, hydrology etc. is described. These techniques include 1) neutron moisture gauges to monitor soil water content and soil water properties, 2) gamma radiation attenuation for measuring the total density of soil and soil water content, 3) beta radiation attenuation for measuring changes in the water status of crop plants and 4) radioactive and stable tracers for identifying pathways, reactions and retention times of the constituents in soils and groundwater aquifers. The number and spacing of soil observations that should be taken to represent the management unit are also considered. (U.K.)

Nano-scale investigation of the association of microbial nitrogen residues with iron (hydr)oxides in a forest soil O-horizon

Science.gov (United States)

Keiluweit, Marco; Bougoure, Jeremy J.; Zeglin, Lydia H.; Myrold, David D.; Weber, Peter K.; Pett-Ridge, Jennifer; Kleber, Markus; Nico, Peter S.

2012-10-01

Amino sugars in fungal cell walls (such as chitin) represent an important source of nitrogen (N) in many forest soil ecosystems. Despite the importance of this material in soil nitrogen cycling, comparatively little is known about abiotic and biotic controls on and the timescale of its turnover. Part of the reason for this lack of information is the inaccessibility of these materials to classic bulk extraction methods. To address this issue, we used advanced visualization tools to examine transformation pathways of chitin-rich fungal cell wall residues as they interact with microorganisms, soil organic matter and mineral surfaces. Our goal was to document initial micro-scale dynamics of the incorporation of 13C- and 15N-labeled chitin into fungi-dominated microenvironments in O-horizons of old-growth forest soils. At the end of a 3-week incubation experiment, high-resolution secondary ion mass spectrometry imaging of hyphae-associated soil microstructures revealed a preferential association of 15N with Fe-rich particles. Synchrotron-based scanning transmission X-ray spectromicroscopy (STXM/NEXAFS) of the same samples showed that thin organic coatings on these soil microstructures are enriched in aliphatic C and amide N on Fe (hydr)oxides, suggesting a concentration of microbial lipids and proteins on these surfaces. A possible explanation for the results of our micro-scale investigation of chemical and spatial patterns is that amide N from chitinous fungal cell walls was assimilated by hyphae-associated bacteria, resynthesized into proteinaceous amide N, and subsequently concentrated onto Fe (hydr)oxide surfaces. If confirmed in other soil ecosystems, such rapid association of microbial N with hydroxylated Fe oxide surfaces may have important implications for mechanistic models of microbial cycling of C and N.

Bacterial density and community structure associated with aggregate size fractions of soil-feeding termite mounds.

Science.gov (United States)

Fall, S; Nazaret, S; Chotte, J L; Brauman, A

2004-08-01

The building and foraging activities of termites are known to modify soil characteristics such as the heterogeneity. In tropical savannas the impact of the activity of soil-feeding termites ( Cubitermes niokoloensis) has been shown to affect the properties of the soil at the aggregate level by creating new soil microenvironments (aggregate size fractions) [13]. These changes were investigated in greater depth by looking at the microbial density (AODC) and the genetic structure (automated rRNA intergenic spacer analysis: ARISA) of the communities in the different aggregate size fractions (i.e., coarse sand, fine sand, coarse silt, fine silt, and dispersible clays) separated from compartments (internal and external wall) of three Cubitermes niokoloensis mounds. The bacterial density of the mounds was significantly higher (1.5 to 3 times) than that of the surrounding soil. Within the aggregate size fractions, the termite building activity resulted in a significant increase in bacterial density within the coarser fractions (>20 mum). Multivariate analysis of the ARISA profiles revealed that the bacterial genetic structures of unfractionated soil and soil aggregate size fractions of the three mounds was noticeably different from the savanna soil used as a reference. Moreover, the microbial community associated with the different microenvironments in the three termite mounds revealed three distinct clusters formed by the aggregate size fractions of each mound. Except for the 2-20 mum fraction, these results suggest that the mound microbial genetic structure is more dependent upon microbial pool affiliation (the termite mound) than on the soil location (aggregate size fraction). The causes of the specificity of the microbial community structure of termite mound aggregate size fractions are discussed.

USDA soil classification system dictates site surface management

International Nuclear Information System (INIS)

Bowmer, W.J.

1985-01-01

Success or failure of site surface management practices greatly affects long-term site stability. The US Department of Agriculture (USDA) soil classification system best documents those parameters which control the success of installed practices for managing both erosion and surface drainage. The USDA system concentrates on soil characteristics in the upper three meters of the surface that support the associated flora both physically and physiologically. The USDA soil survey first identifies soil series based on detailed characteristics that are related to production potential. Using the production potential, land use capability classes are developed. Capability classes reveal the highest and best agronomic use for the site. Lower number classes are considered arable while higher number classes are best suited for grazing agriculture. Application of ecological principles based on the USDA soil survey reveals the current state of the site relative to its ecological potential. To assure success, site management practices must be chosen that are compatible with both production capability and current state of the site

Associations of Pseudomonas species and forage grasses enhance degradation of chlorinated benzoic acids in soil

Energy Technology Data Exchange (ETDEWEB)

Siciliano, S. D.

1998-12-01

Using chlorinated benzoic acid (CBA) as a model compound, this study attempted to show that microorganisms and plants can be used as bioremediation agents to clean up contaminated soil sites in a cost effective and environmentally friendly manner. CBA was used because it is present in soils contaminated with polychlorinated biphenyls (PCBs), or chlorinated pesticides. Sixteen forage grasses were screened in combination with 12 bacterial inoculants for their ability to promote the degradation of CBA in soil. Five associations of plants and bacteria were found to degrade CBA to a greater extent than plants without bacterial inoculants. Bacterial inoculants were shown to stimulate CBA degradation by altering the microbial community present on the root surface and thereby increasing the ability of this community to degrade CBA.

Soil contamination from urban and industrial activity: example of the mining district of Linares (southern Spain)

Science.gov (United States)

Martínez, J.; Llamas, J. F.; de Miguel, E.; Rey, J.; Hidalgo, M. C.

2008-04-01

The Linares region (southern Spain) has been subjected to two important sources of pollution: the intensive mining works and the urban-industrial activity. To obtain a geochemical characterisation of the soil, 31 trace elements were analysed and 669 soil samples were collected. By means of clustering analysis, we identified groups of elements and grid squares in which relations could be established concerning soil lithology, urban and industrial activities and the degree of pollution impact; in addition, we were able to characterise the geochemical background of the study area. The multivariate study led us to identify four factors. Particularly important was factor 2, which represented the elements associated with mineral paragenesis (Cu, Pb, As, Co, Mn, Zn, Sn, Ba). This factor also contains elements related with an urban-industrial activity, such as Pb, Cu, Zn, As and Ba. Furthermore, we identified factor 4, associating Ni, V and Cr, and which is related to the use of fuels.

Land Suitability Evaluation for Blueberry Crop by Determining the Qualitative Properties of the Identified Soil Type Related with the Antioxidant Capacity of Fruits

Directory of Open Access Journals (Sweden)

Amalia Ioana BOT

2017-12-01

Full Text Available Organic and inorganic forms of nitrogen and carbon were measured in order to determine soil fertility. The amount of total nitrogen ranged between 0.849 g/kg and 1.755 g/kg in the samples gathered from soil in modified state and between 0.961 k/kg and 2.427 g/kg in the samples collected from the soil in natural state. Based on these results it could be concluded that in comparing with the previous year, plants used the soil nutrients for their development. The activities of different enzymes were measured as well. Nitrate reductase activity was also higher in samples collected from soil in modified state (from bilon than in the samples collected near plantations (control samples and the values ranged between 0.055 ± 0.012 μmol⋅h-1⋅g-1 and 1.018 ± 0.117 μmol⋅h-1⋅g-1 in samples from soil in natural state and between 0.013 ± 0.002 μmol⋅h-1⋅g-1 and 0.447 ± 0.083 μmol⋅h-1⋅g-1 in bilons. Using GIS techniques of spatial analysis to determine the exact type of soil from each studied blueberry plantation from the Northwest Region of Development and also based on the soil bio-chemical analyses, it was possible to achieve a qualitative characterization of the territory, taking into account the requirements of blueberries for cultivation and to achieve a land suitability for blueberry crop. Combining laboratory approach, consisting from soil bio-chemical and physico-chemical analyses and chemical analyses of blueberry fruits, with the techniques used in order to determine the soil type and land suitability, the study conducted in the Northwest Region of Development identified the best conditions for blueberry crop, based on the qualitative characterization of land.

[Heavy Metals Accmultio in the Caofeidian Reclamation Soils: Indicated by Soil Magnetic Susceptibility].

Science.gov (United States)

Xue, Yong; Zhou, Qian; Li, Yuan; Zhang, Hai-bo; Hu, Xue-feng; Luo, Yong-ming

2016-04-15

The environmental magnetism method has been widely applied to identify soil heavy metal pollution, which is characterized by simplicity, efficiency, non-destructivity and sensitivity. The present study used magnetic susceptibility to assess the accumulation of heavy metals in soils of the Caofeidian industrial zone which is a typical reclamation area in northern China. The study area was divided into three sub-zones based on the function, including industrial zone, living zone, natural tidal flat and wetland. A total of 35 topsoil samples (0-10 cm) and 3 soil profiles were collected from the three sub-zones. Magnetic susceptibility (X(lf)), iron oxide (Fe2O3) contents and heavy metals contents (Cr, Ni, Cu, Zn, As, Pb, Mn and V) of the samples were analyzed. The results showed that X(lf) values and heavy metals contents exhibited higher spatial variability in the top soil of the industrial zone, indicating the severe impacts of industrial activities. In the soil profiles of the industrial and living zones, all heavy metals were enriched to different degrees in the upper layer (0-20 cm). However, there was no significant change of heavy metal contents in the soil profiles of tidal flat which was far from the industrial area. The X(lf) value was significantly (P soil. This indicated that X(lf) could be used as an indicator for heavy metal accumulation in the industrial zone. However, the X(lf) value was not suitable to be an indicator to show the heavy metal accumulation in the soils of living zone and natural tidal flat. This might be associated with the different sources of magnetic materials among the different sub-zones and the special characteristics of the soils in the tidal flat and wetland.

Effects of altered temperature and precipitation on desert protozoa associated with biological soil crusts.

Science.gov (United States)

Darby, Brian J; Housman, David C; Zaki, Amr M; Shamout, Yassein; Adl, Sina M; Belnap, Jayne; Neher, Deborah A

2006-01-01

Biological soil crusts are diverse assemblages of bacteria, cyanobacteria, algae, fungi, lichens, and mosses that cover much of arid land soils. The objective of this study was to quantify protozoa associated with biological soil crusts and test the response of protozoa to increased temperature and precipitation as is predicted by some global climate models. Protozoa were more abundant when associated with cyanobacteria/lichen crusts than with cyanobacteria crusts alone. Amoebae, flagellates, and ciliates originating from the Colorado Plateau desert (cool desert, primarily winter precipitation) declined 50-, 10-, and 100-fold, respectively, when moved in field mesocosms to the Chihuahuan Desert (hot desert, primarily summer rain). However, this was not observed in protozoa collected from the Chihuahuan Desert and moved to the Sonoran desert (hot desert, also summer rain, but warmer than Chihuahuan Desert). Protozoa in culture began to encyst at 37 degrees C. Cysts survived the upper end of daily temperatures (37-55 degrees C), and could be stimulated to excyst if temperatures were reduced to 15 degrees C or lower. Results from this study suggest that cool desert protozoa are influenced negatively by increased summer precipitation during excessive summer temperatures, and that desert protozoa may be adapted to a specific desert's temperature and precipitation regime.

Soil invertebrates as bioindicators of urban soil quality

International Nuclear Information System (INIS)

Santorufo, Lucia; Van Gestel, Cornelis A.M.; Rocco, Annamaria; Maisto, Giulia

2012-01-01

This study aimed at relating the abundance and diversity of invertebrate communities of urban soils to chemical and physical soil characteristics and to identify the taxa most sensitive or tolerant to soil stressors. The invertebrate community of five urban soils in Naples, Italy, was sampled. To assess soil quality invertebrate community indices (Shannon, Simpson, Menhinick and Pielou indices), Acarina/Collembola ratios, and the soil biological quality index (QBS) were calculated. The chemical and physical characteristics of the soils strongly differed. Abundance rather than taxa richness of invertebrates were more affected by soil characteristics. The community was more abundant and diverse in the soils with high organic matter and water content and low metal (Cu, Pb, Zn) concentrations. The taxa more resistant to the urban environment included Acarina, Enchytraeids, Collembola and Nematoda. Collembolans appeared particularly sensitive to changing soil properties. Among the investigated indices, QBS seems most appropriate for soil quality assessment. - Highlights: ► The abundance and diversity of invertebrate communities was related to properties and metal contents of urban soils. ► Several (biodiversity) indices were calculated and compared to evaluate soil quality. ► Metal contamination affected invertebrate density and diversity. ► The taxa more tolerant to metal contamination were Acarina, Enchytraeids, Collembola and Nematoda. ► The soil biological quality index QBS index was most appropriate for soil quality assessment. - Soil metal contamination negatively affected soil invertebrate abundance and diversity.

Atmospheric carbon exchange associated with vegetation and soils in urban and suburban land uses

Energy Technology Data Exchange (ETDEWEB)

Rowntree, R.A. [Northeastern Forest Experiment Station, Berkeley, CA (United States)

1993-12-31

In studies of the global C cycle prior to the 1980s, urban ecosystems were largely ignored, in part because them were inadequate measures of phytomass and soil carbon for the various land uses associated with cities. In the last decade, progress has been made in gathering urban vegetation data and recently, estimates of urban land use carbon storage and fluxes have been attempted. Demographic trends in many countries suggest that urban areas are growing. Thus it is important to discover the appropriate concepts and methods for understanding greenhouse gas fluxes from urban-related vegetation and soils.

Defoliation and Soil Compaction Jointly Drive Large-Herbivore Grazing Effects on Plants and Soil Arthropods on Clay Soil

NARCIS (Netherlands)

van Klink, R.; Schrama, M.; Nolte, S.; Bakker, J. P.; WallisDeVries, M. F.; Berg, M. P.

In addition to the well-studied impacts of defecation and defoliation, large herbivores also affect plant and arthropod communities through trampling, and the associated soil compaction. Soil compaction can be expected to be particularly important on wet, fine-textured soils. Therefore, we

Defoliation and Soil Compaction Jointly Drive Large-Herbivore Grazing Effects on Plants and Soil Arthropods on Clay Soil

NARCIS (Netherlands)

van Klink, R.; Schrama, M.; Nolte, S.; Bakker, Jan P.; WallisDeVries, M.F.; Berg, M.P.

2015-01-01

In addition to the well-studied impacts of defecation and defoliation, large herbivores also affect plant and arthropod communities through trampling, and the associated soil compaction. Soil compaction can be expected to be particularly important on wet, fine-textured soils. Therefore, we

Soil warming increases metabolic quotients of soil microorganisms without changes in temperature sensitivity of soil respiration

Science.gov (United States)

Marañón-Jiménez, Sara; Soong, Jenniffer L.; Leblans, Niki I. W.; Sigurdsson, Bjarni D.; Dauwe, Steven; Fransen, Erik; Janssens, Ivan A.

2017-04-01

Increasing temperatures can accelerate soil organic matter (SOM) decomposition and release large amounts of CO2 to the atmosphere, potentially inducing climate change feedbacks. Alterations to the temperature sensitivity and metabolic pathways of soil microorganisms in response to soil warming can play a key role in these soil carbon (C) losses. Here, we present results of an incubation experiment using soils from a geothermal gradient in Iceland that have been subjected to different intensities of soil warming (+0, +1, +3, +5, +10 and +20 °C above ambient) over seven years. We hypothesized that 7 years of soil warming would led to a depletion of labile organic substrates, with a subsequent decrease of the "apparent" temperature sensitivity of soil respiration. Associated to this C limitation and more sub-optimal conditions for microbial growth, we also hypothesized increased microbial metabolic quotients (soil respiration per unit of microbial biomass), which is associated with increases in the relative amount of C invested into catabolic pathways along the warming gradient. Soil respiration and basal respiration rates decreased with soil warming intensity, in parallel with a decline in soil C availability. Contrasting to our first hypothesis, we did not detect changes in the temperature sensitivity of soil respiration with soil warming or on the availability of nutrients and of labile C substrates at the time of incubation. However, in agreement to our second hypothesis, microbial metabolic quotients (soil respiration per unit of microbial biomass) increased at warmer temperatures, while the C retained in biomass decreased as substrate became limiting. Long-term (7 years) temperature increases thus triggered a change in the metabolic functioning of the soil microbial communities towards increasing energy costs for maintenance or resource acquisition, thereby lowering the capacity of C retention and stabilization of warmed soils. These results highlight the need

Plutonium association with selected solid phases in soils of Rocky Flats, Colorado, using sequential extraction technique

International Nuclear Information System (INIS)

Litaor, M.I.; Ibrahim, S.A.

1996-01-01

Plutonium contamination in the soil environs of Rock Flats, CO, has been a potential health risk to the public since the late 1960s. Although the measurement of total activity of Pu-239 + 240 in the soil is important information in appraising this risk, total activity does not provide the information required to characterize the geochemical behavior that affects the transport of Pu from the soil and vadose zone to groundwater. A sequential extraction experiment was conducted to assess the geochemical association of Pu with selected mineralogical and chemical phases of the soil. In the surface horizons, Pu-239 + 240 was primarily associated with the organic C (45-65%), sesquioxides (20-40%), and the residual fraction (10-15%). A small portion of Pu-239+240 was associated with soluble (0.09-0.22%), exchangeable (0.04-0.08%), and carbonates (0.57-7.0%) phases. These results suggest that under the observed pH and oxic conditions, relatively little Pu-239 + 240 is available for geochemically induced transport processes. Uncommon hydrogeochemical conditions were observed during the spring of 1995, which may have facilitated a partial dissolution of sesquioxides followed by desorption of Pu resulting in increased Pu mobility. Systematic errors in the sequential extraction experiment due to postextraction readsorption were evaluated using Np-237 tracer as a surrogate to Pu-239. The results suggested that postextraction readsorption rates were insignificant during the first 30 min after extraction for most chemical and mineralogical phases under study. 50 refs., 2 figs., 5 tabs

New Blood Pressure-Associated Loci Identified in Meta-Analyses of 475 000 Individuals

DEFF Research Database (Denmark)

Kraja, Aldi T.; Cook, James P.; Warren, Helen R.

2017-01-01

Background - Genome-wide association studies have recently identified >400 loci that harbor DNA sequence variants that influence blood pressure (BP). Our earlier studies identified and validated 56 single nucleotide variants (SNVs) associated with BP from meta-analyses of exome chip genotype data...

The critical soil P levels for crop yield, soil fertility and environmental safety in different soil types

NARCIS (Netherlands)

Bai, Z.H.; Li, H.G.; Yang, X.Y.; Zhou, B.K.; Shi, X.J.; Wang, B.R.; Li, D.C.; Shen, J.B.; Chen, Q.; Qin, W.; Oenema, O.; Zhang, F.S.

2013-01-01

Sufficient soil phosphorus (P) is important for achieving optimal crop production, but excessive soil P levels may create a risk of P losses and associated eutrophication of surface waters. The aim of this study was to determine critical soil P levels for achieving optimal crop yields and minimal P

Association analysis identifies 65 new breast cancer risk loci

OpenAIRE

Michailidou, Kyriaki; Lindström, Sara; Dennis, Joe; Beesley, Jonathan; Hui, Shirley; Kar, Siddhartha; Lemaçon, Audrey; Soucy, Penny; Glubb, Dylan; Rostamianfar, Asha; Bolla, Manjeet K; Wang, Qin; Tyrer, Jonathan; Dicks, Ed; Lee, Andrew

2017-01-01

Breast cancer risk is influenced by rare coding variants in susceptibility genes, such as BRCA1, and many common, mostly non-coding variants. However, much of the genetic contribution to breast cancer risk remains unknown. Here we report the results of a genome-wide association study of breast cancer in 122,977 cases and 105,974 controls of European ancestry and 14,068 cases and 13,104 controls of East Asian ancestry. We identified 65 new loci that are associated with overall breast cancer ri...

Students Dig Deep in the Mystery Soil Lab: A Playful, Inquiry-Based Soil Laboratory Project

Science.gov (United States)

Thiet, Rachel K.

2014-01-01

The Mystery Soil Lab, a playful, inquiry-based laboratory project, is designed to develop students' skills of inquiry, soil analysis, and synthesis of foundational concepts in soil science and soil ecology. Student groups are given the charge to explore and identify a "Mystery Soil" collected from a unique landscape within a 10-mile…

Genome-wide association analysis identifies 11 risk variants associated with the asthma with hay fever phenotype.

Science.gov (United States)

Ferreira, Manuel A R; Matheson, Melanie C; Tang, Clara S; Granell, Raquel; Ang, Wei; Hui, Jennie; Kiefer, Amy K; Duffy, David L; Baltic, Svetlana; Danoy, Patrick; Bui, Minh; Price, Loren; Sly, Peter D; Eriksson, Nicholas; Madden, Pamela A; Abramson, Michael J; Holt, Patrick G; Heath, Andrew C; Hunter, Michael; Musk, Bill; Robertson, Colin F; Le Souëf, Peter; Montgomery, Grant W; Henderson, A John; Tung, Joyce Y; Dharmage, Shyamali C; Brown, Matthew A; James, Alan; Thompson, Philip J; Pennell, Craig; Martin, Nicholas G; Evans, David M; Hinds, David A; Hopper, John L

2014-06-01

To date, no genome-wide association study (GWAS) has considered the combined phenotype of asthma with hay fever. Previous analyses of family data from the Tasmanian Longitudinal Health Study provide evidence that this phenotype has a stronger genetic cause than asthma without hay fever. We sought to perform a GWAS of asthma with hay fever to identify variants associated with having both diseases. We performed a meta-analysis of GWASs comparing persons with both physician-diagnosed asthma and hay fever (n = 6,685) with persons with neither disease (n = 14,091). At genome-wide significance, we identified 11 independent variants associated with the risk of having asthma with hay fever, including 2 associations reaching this level of significance with allergic disease for the first time: ZBTB10 (rs7009110; odds ratio [OR], 1.14; P = 4 × 10(-9)) and CLEC16A (rs62026376; OR, 1.17; P = 1 × 10(-8)). The rs62026376:C allele associated with increased asthma with hay fever risk has been found to be associated also with decreased expression of the nearby DEXI gene in monocytes. The 11 variants were associated with the risk of asthma and hay fever separately, but the estimated associations with the individual phenotypes were weaker than with the combined asthma with hay fever phenotype. A variant near LRRC32 was a stronger risk factor for hay fever than for asthma, whereas the reverse was observed for variants in/near GSDMA and TSLP. Single nucleotide polymorphisms with suggestive evidence for association with asthma with hay fever risk included rs41295115 near IL2RA (OR, 1.28; P = 5 × 10(-7)) and rs76043829 in TNS1 (OR, 1.23; P = 2 × 10(-6)). By focusing on the combined phenotype of asthma with hay fever, variants associated with the risk of allergic disease can be identified with greater efficiency. Copyright © 2013 American Academy of Allergy, Asthma & Immunology. Published by Mosby, Inc. All rights reserved.

Deep Ion Torrent sequencing identifies soil fungal community shifts after frequent prescribed fires in a southeastern US forest ecosystem.

Science.gov (United States)

Brown, Shawn P; Callaham, Mac A; Oliver, Alena K; Jumpponen, Ari

2013-12-01

Prescribed burning is a common management tool to control fuel loads, ground vegetation, and facilitate desirable game species. We evaluated soil fungal community responses to long-term prescribed fire treatments in a loblolly pine forest on the Piedmont of Georgia and utilized deep Internal Transcribed Spacer Region 1 (ITS1) amplicon sequencing afforded by the recent Ion Torrent Personal Genome Machine (PGM). These deep sequence data (19,000 + reads per sample after subsampling) indicate that frequent fires (3-year fire interval) shift soil fungus communities, whereas infrequent fires (6-year fire interval) permit system resetting to a state similar to that without prescribed fire. Furthermore, in nonmetric multidimensional scaling analyses, primarily ectomycorrhizal taxa were correlated with axes associated with long fire intervals, whereas soil saprobes tended to be correlated with the frequent fire recurrence. We conclude that (1) multiplexed Ion Torrent PGM analyses allow deep cost effective sequencing of fungal communities but may suffer from short read lengths and inconsistent sequence quality adjacent to the sequencing adaptor; (2) frequent prescribed fires elicit a shift in soil fungal communities; and (3) such shifts do not occur when fire intervals are longer. Our results emphasize the general responsiveness of these forests to management, and the importance of fire return intervals in meeting management objectives. © 2013 Federation of European Microbiological Societies. Published by John Wiley & Sons Ltd. All rights reserved.

Impact of land-use change and soil organic carbon quality on microbial diversity in soils across Europe.

Science.gov (United States)

Szoboszlay, Márton; Dohrmann, Anja B; Poeplau, Christopher; Don, Axel; Tebbe, Christoph C

2017-12-01

Land-use and their change have dramatic consequences for above-ground biodiversity, but their impact on soil microbial communities is poorly understood. In this study, soils from 19 European sites representing conversion of croplands to grasslands or forests and of grasslands to croplands or forests were characterized for microbial abundance and bacterial diversity. The abundance of Bacteria and Fungi but not Archaea responded to land-use change. Site was the major determinant of the soil bacterial community structure, explaining 32% of the variation in 16S rRNA gene diversity. While the quantity of soil organic carbon (SOC) only explained 5% of the variation, SOC when differentiated by its quality could explain 22%. This was similar to the impact of soil pH (21%) and higher than that of land-use type (15%). Croplands had the highest bacterial diversity. Converting croplands to grassland caused an increase of Verrucomicrobia; croplands to forest increased Rhizobiales but decreased Bacteroidetes and Nitrospirae; and grasslands to cropland increased Gemmatimonadetes but decreased Verrucomicrobia and Planctomycetes. Network analysis identified associations between particular SOC fractions and specific bacterial taxa. We conclude that land-use-related effects on soil microorganisms can be consistently observed across a continental scale. © FEMS 2017. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

In Situ Generated Colloid Transport of Cu and Zn in Reclaimed Mine Soil Profiles Associated with Bio solids Application

International Nuclear Information System (INIS)

Miller, J.O.; Karathanasis, A.D.; Matocha, C.J.

2011-01-01

Areas reclaimed for agricultural uses following coal mining often receive bio solids applications to increase organic matter and fertility. Transport of heavy metals within these soils may be enhanced by the additional presence of bio solids colloids. Intact monoliths from reclaimed and undisturbed soils in Virginia and Kentucky were leached to observe Cu and Zn mobility with and without bio solids application. Transport of Cu and Zn was observed in both solution and colloid associated phases in reclaimed and undisturbed forest soils, where the presence of unweathered spoil material and bio solids amendments contributed to higher metal release in solution fractions. Up to 81% of mobile Cu was associated with the colloid fraction, particularly when gabbiest was present, while only up to 18% of mobile Zn was associated with the colloid fraction. The colloid bound Cu was exchangeable by ammonium acetate, suggesting that it will release into groundwater resources.

In Situ Generated Colloid Transport of Cu and Zn in Reclaimed Mine Soil Profiles Associated with Bio solids Application

International Nuclear Information System (INIS)

Miller, J.O.; Karathanasis, A.D.; Matocha, C.J.

2011-01-01

Areas reclaimed for agricultural uses following coal mining often receive bio solids applications to increase organic matter and fertility. Transport of heavy metals within these soils may be enhanced by the additional presence of bio solids colloids. Intact monoliths from reclaimed and undisturbed soils in Virginia and Kentucky were leached to observe Cu and Zn mobility with and without bio solids application. Transport of Cu and Zn was observed in both solution and colloid associated phases in reclaimed and undisturbed forest soils, where the presence of unweathered spoil material and bio solids amendments contributed to higher metal release in solution fractions. Up to 81% of mobile Cu was associated with the colloid fraction, particularly when gibbsite was present, while only up to 18% of mobile Zn was associated with the colloid fraction. The colloid bound Cu was exchangeable by ammonium acetate, suggesting that it will release into groundwater resources.

Mutagenic hazards of complex polycyclic aromatic hydrocarbon mixtures in contaminated soil

Energy Technology Data Exchange (ETDEWEB)

Lemieux, C.L.; Lambert, A.B.; Lundstedt, S.; Tysklind, M.; White, P.A. [Health Canada, Ottawa, ON (Canada). Safe Environment Program

2008-04-15

The objective of the present study was to evaluate hazard/risk assessment methods for complex environmental mixtures that involve a targeted, priority chemical approach based on the cumulative hazard/risk of known mixture components or analyses of sufficiently similar mixtures. Ten polycyclic aromatic hydrocarbon (PAH)-contaminated soils were separated into nonpolar and semipolar fractions, and both fractions elicited positive responses on the Salmonella reverse mutation assay. Targeted and nontargeted methods of hazard prediction routinely overestimated mutagenic activities for the nonpolar soil fractions, suggesting nonadditive interactions of PAHs in complex mixtures. This suggests that current risk assessment methods for complex mixtures may provide conservative estimates regarding soils contaminated with priority PAHs alone. Significant underestimations of total risk, however, will be obtained if the soils also contain unidentified PAHs as well as polycyclic aromatic compounds and related compounds that contribute to the total mutagenic activity. Furthermore, estimates of excess lifetime cancer risk associated with the nondietary ingestion of the PAH-contaminated soils studied here indicate that a traditional risk assessment model based on identified priority PAHs and an assumption of additivity generally underestimates the risk associated with the nonpolar soil fractions (in comparison to bioassay-derived risk estimates). Additional cancer risk may be associated with the more polar compounds that also are found at these contaminated sites and that rarely are included in the standard risk assessment methodology.

Reducing contaminated soil rehabilitation costs - review of portable XRF performance on Australian soils

International Nuclear Information System (INIS)

Bowden-Smith, J.

2001-01-01

Mine owners and managers are often shocked by the financial costs involved in remediating metal contaminated soils, especially those associated with the closure of base metal mines. Lack of due consideration during planning, inappropriate operational controls for water and dust emissions, little monitoring data and new contaminated land legislation coupled with traditional owners seeking mining leases to be remediated to low (even background) levels are reasons for multi-million dollar cost blow-outs. At some base metal operations, emissions have travelled outside the mine lease impacting on neighbouring pastoral land and in some cases contaminating near-by communities. Traditional sampling and laboratory analysis costs have restricted the collection of data to adequately define the problem resulting in poor management of metal-contaminated soil. A portable analytical tool that provides on-site geochemistry could assist in identifying issues early, allowing for improved management practices and lower overall clean-up costs. This paper reviews independent evaluation studies for soil contaminated by heavy metal with XRF, using a new portable technology developed in the USA by the NITON Corporation

Repeated application of organic waste affects soil organic matter composition

DEFF Research Database (Denmark)

Peltre, Clément; Gregorich, Edward G.; Bruun, Sander

2017-01-01

Land application of organic waste is an important alternative to landfilling and incineration because it helps restore soil fertility and has environmental and agronomic benefits. These benefits may be related to the biochemical composition of the waste, which can result in the accumulation...... of different types of carbon compounds in soil. The objective of this study was to identify and characterise changes in soil organic matter (SOM) composition after repeated applications of organic waste. Soil from the CRUCIAL field experiment in Denmark was sampled after 12 years of annual application...... that there was accumulation in soil of different C compounds for the different types of applied organic waste, which appeared to be related to the degree to which microbial activity was stimulated and the type of microbial communities applied with the wastes or associated with the decomposition of applied wastes...

The effects of the urban built environment on the spatial distribution of lead in residential soils

International Nuclear Information System (INIS)

Schwarz, K.; Pickett, Steward T.A.; Lathrop, Richard G.; Weathers, Kathleen C.; Pouyat, Richard V.; Cadenasso, Mary L.

2012-01-01

Lead contamination of urban residential soils is a public health concern. Consequently, there is a need to delineate hotspots in the landscape to identify risk and facilitate remediation. Land use is a good predictor of some environmental pollutants. However, in the case of soil lead, research has shown that land use is not a useful proxy. We hypothesize that soil lead is related to both individual landscape features at the parcel scale and the landscape context in which parcels are embedded. We sampled soil lead on 61 residential parcels in Baltimore, Maryland using field-portable x-ray fluorescence. Thirty percent of parcels had average lead concentrations that exceeded the USEPA limit of 400 ppm and 53% had at least one reading that exceeded 400 ppm. Results indicate that soil lead is strongly associated with housing age, distance to roadways, and on a parcel scale, distance to built structures. - Highlights: ► We investigated the effect of landscape heterogeneity on lead in residential soil. ► Landscape heterogeneity was considered at two different spatial scales. ► We sampled soil lead on residential parcels using field-portable x-ray fluorescence. ► Soil lead was associated with housing age and distance to roadways and buildings. ► Research has implications for land planning, health policies and predictive models. - We investigated the influence of landscape heterogeneity on lead in residential soil using x-ray fluorescence and identified important correlations with elements of urban land cover.

Soil properties and olive cultivar determine the structure and diversity of plant-parasitic nematode communities infesting olive orchards soils in southern Spain.

Science.gov (United States)

Palomares-Rius, Juan E; Castillo, Pablo; Montes-Borrego, Miguel; Navas-Cortés, Juan A; Landa, Blanca B

2015-01-01

This work has studied for the first time the structure and diversity of plant-parasitic nematodes (PPNs) infesting olive orchard soils in a wide-region in Spain that included 92 locations. It aims at determining which agronomical or environmental factors associated to the olive orchards are the main drivers of the PPNs community structure and diversity. Classical morphological and morphometric identification methods were used to determine the frequency and densities of PPNs. Thirteen families, 34 genera and 77 species of PPNs were identified. The highest diversity was found in Helicotylenchus genus, with six species previously reported in Spain and with H. oleae being a first report. Neodolichorhynchus microphasmis and Diptenchus sp., Diphtherophora sp., and Discotylenchus sp., usually considered fungal feeders, were also reported for the first time associated to olive rhizosphere. PPNs abundance ranged from 66 to 16,288 individuals/500-cm3 of soil with Helicotylenchus digonicus being the most prevalent species, followed by Filenchus sp., Merlinius brevidens and Xiphinema pachtaicum. Nematode abundance and diversity indexes were influenced by olive cultivar, and orchard and soil management practices; while olive variety and soil texture were the main factors driving PPN community composition. Soil physicochemical properties and climatic characteristics most strongly associated to the PPN community composition included pH, sand content and exchangeable K, and maximum and minimum average temperature of the sampled locations. Our data suggests that there is a high diversity of PPNs associated to olive in Southern Spain that can exert different damage to olive roots depending on the olive variety and their abundance. Further analysis to determine the resistance levels of most common olive varieties to the prevalent PPNs in Spain will help to choose the most appropriate ones for the establishment of new plantations. This choice will take into consideration the specific

Investigation of soil properties for identifying recharge characteristics in the Lake Chad Basin

Science.gov (United States)

Banks, M. L.; Ndunguru, G. G.; Adisa, S. J.; Lee, J.; Adegoke, J. O.; Goni, I. B.; Grindley, J.; Mulugeta, V.

2009-12-01

Lake Chad was once labeled as one of the largest fresh water lakes in the world, providing water and livelihood to over 20 million people. The lake is shared by six different countries; Chad Nigeria, Niger, Cameroon, Central African Republic, and Sudan. Since the 1970 to date, a significant decrease in the size of the lake has been observed with the use of satellite imagery. This shrinking of the lake has been blamed on global warming, population increase and poor water management by the agriculture industry for farming purpose for both plants and animals. While these can be all valid reasons for the decrease of Lake Chad, we see the need to examine environmental and hydrological evidence around the Lake Chad basin. This study was carried out from upper stream to lower stream leading from Kano to the Damatru region which is one of several water bodies that supply Lake Chad. Over seventy six sites were sampled for soil texture, bulk density and other physical properties to investigate recharge capacity of the basin especially along the stream. Soils were collected using a soil core and properly stored at 4 degrees Celsius. Soils were weighed and put to dry at 105 degrees for twenty four hours. Dry weight was recorded and bulk density was calculated. The wet sieve method was used to determine the particle size analysis. Soils were weighed to 10 grams and hydrogen peroxide added to separate particles. Samples were washed with water and put to dry overnight. Soils were reweighed and sieved to separate as course sand, fine sand and silt and clay. The data revealed that in the upstream, coarse sand continuously decreased while silt and clay continuously increased down toward the lake. At mid stream silt and clay had significantly higher values when compared to coarse sand and fine sand. In the lower stream, bulk density clearly decreased compared to the upper and mid streams. Correlations will be carried out to investigate the particle size analysis and bulk density with

Geotechnical properties of Egyptian collapsible soils

Directory of Open Access Journals (Sweden)

Khaled E. Gaaver

2012-09-01

Full Text Available The risk of constructing structures on collapsible soils presents significant challenges to geotechnical engineers due to sudden reduction in volume upon wetting. Identifying collapsible soils when encountered in the field and taking the needed precautions should substantially reduce the risk of such problems usually reported in buildings and highways. Collapsible soils are those unsaturated soils that can withstand relatively high pressure without showing significant change in volume, however upon wetting; they are susceptible to a large and sudden reduction in volume. Collapsible soils cover significant areas around the world. In Egypt, collapsible soils were observed within the northern portion of the western desert including Borg El-Arab region, and around the city of Cairo in Six-of-October plateau, and Tenth-of-Ramadan city. Settlements associated with development on untreated collapsible soils usually lead to expensive repairs. One method for treating collapsible soils is to densify their structure by compaction. The ongoing study presents the effect of compaction on the geotechnical properties of the collapsible soils. Undisturbed block samples were recovered from test pits at four sites in Borg El-Arab district, located at about 20 km west of the city of Alexandria, Egypt. The samples were tested in both unsoaked and soaked conditions. Influence of water inundation on the geotechnical properties of collapsible soils was demonstrated. A comparative study between natural undisturbed and compacted samples of collapsible soils was performed. An attempt was made to relate the collapse potential to the initial moisture content. An empirical correlation between California Bearing Ratio of the compacted collapsible soils and liquid limit was adopted. The presented simple relationships should enable the geotechnical engineers to estimate the complex parameters of collapsible soils using simple laboratory tests with a reasonable accuracy.

Genome-wide association analysis identifies three new breast cancer susceptibility loci

DEFF Research Database (Denmark)

Ghoussaini, Maya; Fletcher, Olivia; Michailidou, Kyriaki

2012-01-01

Breast cancer is the most common cancer among women. To date, 22 common breast cancer susceptibility loci have been identified accounting for ∼8% of the heritability of the disease. We attempted to replicate 72 promising associations from two independent genome-wide association studies (GWAS...

Lead distribution in soils impacted by a secondary lead smelter: Experimental and modelling approaches

Energy Technology Data Exchange (ETDEWEB)

Schneider, Arnaud R., E-mail: arnaud.schneider@univ-reims.fr [GEGENAA, EA 3795, Université de Reims Champagne-Ardenne, SFR Condorcet FR CNRS 3417, 2 esplanade Roland Garros, 51100 Reims (France); Cancès, Benjamin; Ponthieu, Marie [GEGENAA, EA 3795, Université de Reims Champagne-Ardenne, SFR Condorcet FR CNRS 3417, 2 esplanade Roland Garros, 51100 Reims (France); Sobanska, Sophie [Laboratoire de Spectrochimie IR et Raman, UMR-CNRS 8516, Bât. C5 Université de Lille I, 59655 Villeneuve d' Ascq Cedex (France); Benedetti, Marc F. [Institut de Physique du Globe de Paris, Sorbonne Paris Cité, Université Paris Diderot, UMR 7154, CNRS, F-75005 Paris (France); Pourret, Olivier [HydrISE, Institut Polytechnique LaSalle Beauvais, FR-60000 Beauvais (France); Conreux, Alexandra; Calandra, Ivan; Martinet, Blandine; Morvan, Xavier; Gommeaux, Maxime; Marin, Béatrice [GEGENAA, EA 3795, Université de Reims Champagne-Ardenne, SFR Condorcet FR CNRS 3417, 2 esplanade Roland Garros, 51100 Reims (France)

2016-10-15

Smelting activities are one of the most common sources of trace elements in the environment. The aim of this study was to determine the lead distribution in upper horizons (0–5 and 5–10 cm) of acidic soils in the vicinity of a lead-acid battery recycling plant in northern France. The combination of chemical methods (sequential extractions), physical methods (Raman microspectroscopy and scanning electron microscopy with an energy dispersive spectrometer) and multi-surface complexation modelling enabled an assessment of the behaviour of Pb. Regardless of the studied soil, none of the Pb-bearing phases commonly identified in similarly polluted environments (e.g., anglesite) were observed. Lead was mainly associated with organic matter and manganese oxides. The association of Pb with these soil constituents can be interpreted as evidence of Pb redistribution in the studied soils following smelter particle deposition. - Highlights: • Lead behavior was studied in smelter impacted soils. • A combination of experimental methods and modelling was employed. • Pb was mainly associated with organic matter and to a lesser degree with Mn oxides. • Pb was redistributed in soils after smelter particle deposition.

Lead distribution in soils impacted by a secondary lead smelter: Experimental and modelling approaches

International Nuclear Information System (INIS)

Schneider, Arnaud R.; Cancès, Benjamin; Ponthieu, Marie; Sobanska, Sophie; Benedetti, Marc F.; Pourret, Olivier; Conreux, Alexandra; Calandra, Ivan; Martinet, Blandine; Morvan, Xavier; Gommeaux, Maxime; Marin, Béatrice

2016-01-01

Smelting activities are one of the most common sources of trace elements in the environment. The aim of this study was to determine the lead distribution in upper horizons (0–5 and 5–10 cm) of acidic soils in the vicinity of a lead-acid battery recycling plant in northern France. The combination of chemical methods (sequential extractions), physical methods (Raman microspectroscopy and scanning electron microscopy with an energy dispersive spectrometer) and multi-surface complexation modelling enabled an assessment of the behaviour of Pb. Regardless of the studied soil, none of the Pb-bearing phases commonly identified in similarly polluted environments (e.g., anglesite) were observed. Lead was mainly associated with organic matter and manganese oxides. The association of Pb with these soil constituents can be interpreted as evidence of Pb redistribution in the studied soils following smelter particle deposition. - Highlights: • Lead behavior was studied in smelter impacted soils. • A combination of experimental methods and modelling was employed. • Pb was mainly associated with organic matter and to a lesser degree with Mn oxides. • Pb was redistributed in soils after smelter particle deposition.

Soil CO2 Dynamics in a Tree Island Soil of the Pantanal: The Role of Soil Water Potential

Science.gov (United States)

Johnson, Mark S.; Couto, Eduardo Guimarães; Pinto Jr, Osvaldo B.; Milesi, Juliana; Santos Amorim, Ricardo S.; Messias, Indira A. M.; Biudes, Marcelo Sacardi

2013-01-01

The Pantanal is a biodiversity hotspot comprised of a mosaic of landforms that differ in vegetative assemblages and flooding dynamics. Tree islands provide refuge for terrestrial fauna during the flooding period and are particularly important to the regional ecosystem structure. Little soil CO2 research has been conducted in this region. We evaluated soil CO2 dynamics in relation to primary controlling environmental parameters (soil temperature and soil water). Soil respiration was computed using the gradient method using in situ infrared gas analyzers to directly measure CO2 concentration within the soil profile. Due to the cost of the sensors and associated equipment, this study was unreplicated. Rather, we focus on the temporal relationships between soil CO2 efflux and related environmental parameters. Soil CO2 efflux during the study averaged 3.53 µmol CO2 m−2 s−1, and was equivalent to an annual soil respiration of 1220 g C m−2 y−1. This efflux value, integrated over a year, is comparable to soil C stocks for 0–20 cm. Soil water potential was the measured parameter most strongly associated with soil CO2 concentrations, with high CO2 values observed only once soil water potential at the 10 cm depth approached zero. This relationship was exhibited across a spectrum of timescales and was found to be significant at a daily timescale across all seasons using conditional nonparametric spectral Granger causality analysis. Hydrology plays a significant role in controlling CO2 efflux from the tree island soil, with soil CO2 dynamics differing by wetting mechanism. During the wet-up period, direct precipitation infiltrates soil from above and results in pulses of CO2 efflux from soil. The annual flood arrives later, and saturates soil from below. While CO2 concentrations in soil grew very high under both wetting mechanisms, the change in soil CO2 efflux was only significant when soils were wet from above. PMID:23762259

Characterization of bacterial community structure in a hydrocarbon-contaminated tropical African soil.

Science.gov (United States)

Salam, Lateef B; Ilori, Mathew O; Amund, Olukayode O; LiiMien, Yee; Nojiri, Hideaki

2018-04-01

The bacterial community structure in a hydrocarbon-contaminated Mechanical Engineering Workshop (MWO) soil was deciphered using 16S rRNA gene clone library analysis. Four hundred and thirty-seven clones cutting across 13 bacterial phyla were recovered from the soil. The representative bacterial phyla identified from MWO soil are Proteobacteria, Bacteroidetes, Chloroflexi, Acidobacteria, Firmicutes, Actinobacteria, Verrucomicrobia, Planctomycetes, Ignavibacteriae, Spirochaetes, Chlamydiae, Candidatus Saccharibacteria and Parcubacteria. Proteobacteria is preponderant in the contaminated soil (51.2%) with all classes except Epsilonproteobacteria duly represented. Rarefaction analysis indicates 42%, 52% and 77% of the clone library is covered at the species, genus and family/class delineations with Shannon diversity (H') and Chao1 richness indices of 5.59 and 1126, respectively. A sizeable number of bacterial phylotypes in the clone library shared high similarities with strains previously described to be involved in hydrocarbon biodegradation. Novel uncultured genera were identified that have not been previously reported from tropical African soil to be associated with natural attenuation of hydrocarbon pollutants. This study establishes the involvement of a wide array of physiologically diverse bacterial groups in natural attenuation of hydrocarbon pollutants in soil.

Identification of anthraquinone-degrading bacteria in soil contaminated with polycyclic aromatic hydrocarbons.

Science.gov (United States)

Rodgers-Vieira, Elyse A; Zhang, Zhenfa; Adrion, Alden C; Gold, Avram; Aitken, Michael D

2015-06-01

Quinones and other oxygenated polycyclic aromatic hydrocarbons (oxy-PAHs) are toxic and/or genotoxic compounds observed to be cocontaminants at PAH-contaminated sites, but their formation and fate in contaminated environmental systems have not been well studied. Anthracene-9,10-dione (anthraquinone) has been found in most PAH-contaminated soils and sediments that have been analyzed for oxy-PAHs. However, little is known about the biodegradation of oxy-PAHs, and no bacterial isolates have been described that are capable of growing on or degrading anthraquinone. PAH-degrading Mycobacterium spp. are the only organisms that have been investigated to date for metabolism of a PAH quinone, 4,5-pyrenequinone. We utilized DNA-based stable-isotope probing (SIP) with [U-(13)C]anthraquinone to identify bacteria associated with anthraquinone degradation in PAH-contaminated soil from a former manufactured-gas plant site both before and after treatment in a laboratory-scale bioreactor. SIP with [U-(13)C]anthracene was also performed to assess whether bacteria capable of growing on anthracene are the same as those identified to grow on anthraquinone. Organisms closely related to Sphingomonas were the most predominant among the organisms associated with anthraquinone degradation in bioreactor-treated soil, while organisms in the genus Phenylobacterium comprised the majority of anthraquinone degraders in the untreated soil. Bacteria associated with anthracene degradation differed from those responsible for anthraquinone degradation. These results suggest that Sphingomonas and Phenylobacterium species are associated with anthraquinone degradation and that anthracene-degrading organisms may not possess mechanisms to grow on anthraquinone. Copyright © 2015, American Society for Microbiology. All Rights Reserved.

Partitioning of Iron and Scandium in Soils Having Water Drainage Limitations

International Nuclear Information System (INIS)

Aide, M.; Braden, I.; Mueller, W.

2010-01-01

Soil chemistry of Fe includes weathering reactions, adsorption, hydrolysis, complexation, and oxidation-reduction reactions. Soil chemistry for scandium (Sc) is similar, but Sc does not include oxidation-reduction reactions. To determine if geochemical analysis may be used to identify Sc partitioning with respect to Fe among the particle size fractions, two Alfisol and two Ultisol soils were assessed using an aqua-regia digestion to estimate Sc and Fe concentrations for whole soil and particle size separates. Aqua-regia digestion data showed Sc depletion relative to Fe in sand separate. Sand separate is largely composed on quartz sand and Fe-Mn-bearing nodules, which are redoximorphic features produced by alternating oxic and suboxic/anoxic conditions associated with seasonally fluctuating water tables. Relative partitioning of Fe and Sc in these soils warrants further study to assess if selective extractions could quantify the extent of modern or ancestral oxidation-reduction processes responsible in some soil features involved in soil genesis.

Soil Plasticity Model for Analysis of Collapse Load on Layers Soil

Directory of Open Access Journals (Sweden)

Md Nujid Masyitah

2016-01-01

Full Text Available Natural soil consist of soil deposits which is a soil layer overlying a thick stratum of another soil. The bearing capacity of layered soil studies have been conducted using different approach whether theoretical, experimental and combination of both. Numerical method in computer programme has become a powerful tool in solving complex geotechnical problems. Thus in numerical modelling, stress-strain soil behaviour is well predicted, design and interpreted using appropriate soil model. It is also important to identify parameters and soil model involve in prediction real soil problem. The sand layer overlaid clay layer soil is modelled with Mohr-Coulomb and Drucker-Prager criterion. The bearing capacity in loaddisplacement analysis from COMSOL Multiphysics is obtained and presented. In addition the stress distribution and evolution of plastic strain for each thickness ratio below centre of footing are investigated. The results indicate the linear relation on load-displacement which have similar trend for both soil models while stress and plastic strain increase as thickness ratio increase.

Associative diazotrophic bacteria in grass roots and soils from heavy metal contaminated sites.

Science.gov (United States)

Moreira, Fátima M S; Lange, Anderson; Klauberg-Filho, Osmar; Siqueira, José O; Nóbrega, Rafaela S A; Lima, Adriana S

2008-12-01

This work aimed to evaluate density of associative diazotrophic bacteria populations in soil and grass root samples from heavy metal contaminated sites, and to characterize isolates from these populations, both, phenotypically (Zinc, Cadmium and NaCl tolerance in vitro, and protein profiles) and genotypically (16S rDNA sequencing), as compared to type strains of known diazotrophic species. Densities were evaluated by using NFb, Fam and JNFb media, commonly used for enrichment cultures of diazotrophic bacteria. Bacterial densities found in soil and grass root samples from contaminated sites were similar to those reported for agricultural soils. Azospirillum spp. isolates from contaminated sites and type strains from non-contaminated sites varied substantially in their in vitro tolerance to Zn+2 and Cd+2, being Cd+2 more toxic than Zn+2. Among the most tolerant isolates (UFLA 1S, 1R, S181, S34 and S22), some (1R, S34 and S22) were more tolerant to heavy metals than rhizobia from tropical and temperate soils. The majority of the isolates tolerant to heavy metals were also tolerant to salt stress as indicated by their ability to grow in solid medium supplemented with 30 g L(-1) NaCl. Five isolates exhibited high dissimilarity in protein profiles, and the 16S rDNA sequence analysis of two of them revealed new sequences for Azospirillum.

Transfer of wastewater associated pharmaceuticals and personal care products to crop plants from biosolids treated soil.

Science.gov (United States)

Wu, Chenxi; Spongberg, Alison L; Witter, Jason D; Sridhar, B B Maruthi

2012-11-01

The plant uptake of emerging organic contaminants such as pharmaceuticals and personal care products (PPCPs) is receiving increased attention. Biosolids from municipal wastewater treatment have been previously identified as a major source for PPCPs. Thus, plant uptake of PPCPs from biosolids applied soils needs to be understood. In the present study, the uptake of carbamazepine, diphenhydramine, and triclocarban by five vegetable crop plants was examined in a field experiment. At the time of harvest, three compounds were detected in all plants grown in biosolids-treated soils. Calculated root concentration factor (RCF) and shoot concentration factor (SCF) are the highest for carbamazepine followed by triclocarban and diphenhydramine. Positive correlation between RCF and root lipid content was observed for carbamazepine but not for diphenhydramine and triclocarban. The results demonstrate the ability of crop plants to accumulate PPCPs from contaminated soils. The plant uptake processes of PPCPs are likely affected by their physico-chemical properties, and their interaction with soil. The difference uptake behavior between plant species could not solely be attributed to the root lipid content. Copyright © 2012 Elsevier Inc. All rights reserved.

The CO2 emission in urbanic soils in the conditions of intensive technogenic pollution

Science.gov (United States)

Deviatova, Tatiana; Alaeva, Liliia; Negrobova, Elena; Kramareva, Tatiana

2017-04-01

Massive industrial pollution of the environment including soils leads to drastic changes in the vital activity of microorganisms, plants and animals. As objects of research was selected soils of the industrial and residential zones, farmland soils, forest soils. Comparative analysis showed that the emission of CO2 urbanizable increase compared to the suburban soils in recreational areas is 1.5 times, in the residential and industrial zones - in 3-5 times. In addition, identified a local point located in the vicinity of chemical plants, where soil CO2 emission increased up to 40 times compared to the suburban soils. Air technogenic pollution of soils by industrial emissions and transport enhances the mineralization of soil organic matter, increases its lability. These trends are associated with nonspecific adaptive reactions of the soil microbial complex in terms of pollution. Strengthening of the processes of mineralization may be due to the increase in the proportion of fungi in the microbial community. According to numerous reports they are more resistant to pollution compared to bacteria and actinomycetes. Admission to the soil organic matter of anthropogenic origin also increases the process of mineralization. According to the findings, low concentrations of petroleum products lead to increased "breathing" of the soil. Strengthening of the processes of mineralization and, consequently, of CO2 emissions, in the conditions of technogenic pollution of the soils identified in our studies, confirmed by numerous studies by other authors. According to reports in Russia the emission of CO2 from soils is 4.5 times higher than the industrial receipt of its atmosphere. The contribution of local anthropogenic CO2 emissions is not so significant compared to the indirect influence of soil pollution on increased CO2 emissions. Consequently, the expansion of technogenic contaminated soil is becoming a more significant factor adversely affecting the state of the atmosphere

The UK Soil Observatory (UKSO) and mySoil app: crowdsourcing and disseminating soil information.

Science.gov (United States)

Robinson, David; Bell, Patrick; Emmett, Bridget; Panagos, Panos; Lawley, Russell; Shelley, Wayne

2017-04-01

Digital technologies in terms of web based data portals and mobiles apps offer a new way to provide both information to the public, and to engage the public in becoming involved in contributing to the effort of collecting data through crowdsourcing. We are part of the Landpotential.org consortium which is a global partnership committed to developing and supporting the adoption of freely available technology and tools for sustainable land use management, monitoring, and connecting people across the globe. The mySoil app was launched in 2012 and is an example of a free mobile application downloadable from iTunes and Google Play. It serves as a gateway tool to raise interest in, and awareness of, soils. It currently has over 50,000 dedicated users and has crowd sourced more than 4000 data records. Recent developments have expanded the coverage of mySoil from the United Kingdom to Europe, introduced a new user interface and provided language capability, while the UKSO displays the crowd-sourced records from across the globe. We are now trying to identify which industry, education and citizen sectors are using these platforms and how they can be improved. Please help us by providing feedback or taking the survey on the UKSO website. www.UKSO.org The UKSO is a collaboration between major UK soil-data holders to provide maps, spatial data and real-time temporal data from observing platforms such as the UK soil moisture network. Both UKSO and mySoil have crowdsourcing capability and are slowly building global citizen science maps of soil properties such as pH and texture. Whilst these data can't replace professional monitoring data, the information they provide both stimulates public interest and can act as 'soft data' that can help support the interpretation of monitoring data, or guide future monitoring, identifying areas that don't correspond with current analysis. In addition, soft data can be used to map soils with machine learning approaches, such as SoilGrids.

Soil and Root Populations of Fluorescent Pseudomonas spp. Associated with Seedlings and Field-grown Plants are Affected by Sorghum Genotype

Science.gov (United States)

Sorghum [Sorghum bicolor (L.) Moench] is valued for bioenergy, feed and food. Aims: Potential of sorghum genotypes to support differing populations of root- and soil-associated fluorescent Pseudomonas spp. or Fusarium spp., in two soils, was assessed. Methods: Culturable pseudomonads were enumerated...

Clay dispersibility and soil friability – testing the soil clay-to-carbon saturation concept

OpenAIRE

Schjønning, P.; de Jonge, L.W.; Munkholm, L.J.; Moldrup, P.; Christensen, B.T.; Olesen, J.E.

2011-01-01

Soil organic carbon (OC) influences clay dispersibility, which affects soil tilth conditions and the risk of vertical migration of clay colloids. No universal lower threshold of OC has been identified for satisfactory stabilization of soil structure. We tested the concept of clay saturation with OC as a predictor of clay dispersibility and soil friability. Soil was sampled three years in a field varying in clay content (~100 to ~220 g kg-1 soil) and grown with different crop rotations. Clay ...

Plant Community and Nitrogen Deposition as Drivers of Alpha and Beta Diversities of Prokaryotes in Reconstructed Oil Sand Soils and Natural Boreal Forest Soils.

Science.gov (United States)

Masse, Jacynthe; Prescott, Cindy E; Renaut, Sébastien; Terrat, Yves; Grayston, Sue J

2017-05-01

The Athabasca oil sand deposit is one of the largest single oil deposits in the world. Following surface mining, companies are required to restore soil-like profiles that can support the previous land capabilities. The objective of this study was to assess whether the soil prokaryotic alpha diversity (α-diversity) and β-diversity in oil sand soils reconstructed 20 to 30 years previously and planted to one of three vegetation types (coniferous or deciduous trees and grassland) were similar to those found in natural boreal forest soils subject to wildfire disturbance. Prokaryotic α-diversity and β-diversity were assessed using massively parallel sequencing of 16S rRNA genes. The β-diversity, but not the α-diversity, differed between reconstructed and natural soils. Bacteria associated with an oligotrophic lifestyle were more abundant in natural forest soils, whereas bacteria associated with a copiotrophic lifestyle were more abundant in reconstructed soils. Ammonia-oxidizing archaea were most abundant in reconstructed soils planted with grasses. Plant species were the main factor influencing α-diversity in natural and in reconstructed soils. Nitrogen deposition, pH, and plant species were the main factors influencing the β-diversity of the prokaryotic communities in natural and reconstructed soils. The results highlight the importance of nitrogen deposition and aboveground-belowground relationships in shaping soil microbial communities in natural and reconstructed soils. IMPORTANCE Covering over 800 km 2 , land disturbed by the exploitation of the oil sands in Canada has to be restored. Here, we take advantage of the proximity between these reconstructed ecosystems and the boreal forest surrounding the oil sand mining area to study soil microbial community structure and processes in both natural and nonnatural environments. By identifying key characteristics shaping the structure of soil microbial communities, this study improved our understanding of how

Biokinetic study of plutonium and americium associated to the particulates of soil

International Nuclear Information System (INIS)

Espinosa, A.; Aragon, A.; Martinez, J.; Iranzo, C.E.

1996-01-01

The object of this study is to determine the biokinetic parameters of different Plutonium isotopes and Americium inhaled in the state in which they are found in the environment as a result of their deposition in the soil, from an aviation accident that generated different plutonium oxides. to achieve this objective, two lines of work planned. One was the determination of the mineralogical composition and associations that plutonium and americium present in that soil 22 years after the nuclear accident. Other studies were directed to determine the biokinetic of the plutonium isotopes and americium (contained in the dust) deposited tracheally and inhaled by laboratory animals (rats) and in vitro experiments by pulmonary leaching simulation. The in vivo tests have been developed in NRPB (U.K.) and the in vitro experiment, geochemical associations studies, assessment of internal doses to humans resulting from intake of plutonium and americium bearing dusts present in the contaminated area and establishment of ALIs for inhalation, were carried out in CIEMAT (Spain). In this work only determinations and experiments carried out by CIEMAT are includes as a part of the EU Project ''INHALATION AND INGESTION OF RADIONUCLIDES'' contract: FI3P-CT920064a. (Author) 10 refs

Hyphae colonizing bacteria associated with Penicillium bilaii

DEFF Research Database (Denmark)

Ghodsalavi, Behnoushsadat

shown that mycorrhizal helper bacteria presenting in mycorrhizal fungi could stimulate fungal growth, promote establishment of root-fungus symbiosis and enhance plant production. But it is unknown if the comparable relationship exist between the non-mycorrhizal fungus P. bilaii and its hyphae associated...... bacteria. In the current PhD thesis, we assumed that hyphae-associated microbiome of P. bilaii might harbor helper bacteria with ability to improve fungal growth and P solubilization performance. Therefore, we aimed to isolate bacteria associated with the P. bilaii hyphae and identify the fungal growth...... stimulating bacteria with the perspective of promoting efficiency of Jumpstart in soil – plant system. For this purpose, most of the work within the current project was carried out by development of suitable model systems by mimicking the natural soil habitat to reach to the reliable performance in soil...

Soil and Rhizosphere Populations of Fusarium and Fluorescent Pseudomonas spp. Associated with Field-Grown Plants are Affected by Sorghum Genotype

Science.gov (United States)

Sorghum [Sorghum bicolor (L.) Moench] is valued for bioenergy, feed and food. Potential of sorghum genotypes to support differing populations of root- and soil-associated fluorescent Pseudomonas spp. or Fusarium spp., in two soils, was assessed. Pseudomonad and Fusarium numbers were assessed from ro...

Modeling Soil-Landscape Relations in the Sonoran Desert, Arizona, USA

Science.gov (United States)

Regmi, N. R.; Rasmussen, C.

2015-12-01

Digital soil mapping (DSM) techniques that integrate remotely sensed surface topography and reflectance, and map soil-landscape associations have the potential in improve understanding of critical zone evolution and landscape processes. The goal of this study was to understand the soil-geomorphic evolution of Quaternary alluvial and eolian deposits in the Sonoran Desert using a data-driven DSM technique and mapping of soil-landscape relationships. An iterative principal component analysis (iPCA) data reduction routine was developed and implemented for a set of LiDAR elevation- and Landsat ETM+-derived environmental covariates that characterize soil-landscape variability. Principal components that explain more than 95% of the soil-landscape variability were then integrated and classified based on an ISODATA (Iterative Self-Organizing Data) unsupervised technique. The classified map was then segmented based on a region growing algorithm and multi-scale maps of soil-landscape relations were developed, which then compared with maps of major arid-region landforms that can be identified on aerial photographs and satellite images by their distinguishing tone and texture, and in the field by their distinguishing surface and sub-surface soil physical, chemical and biological properties. The approach identified and mapped the soil-landscape variability of alluvial and eolian landscapes, and illustrated the applicability of coupling covariate selection and integration by iPCA, ISODATA classifications of integrated layers, and image segmentation for effective spatial prediction of soil-landscape characteristics. The approach developed here is data-driven, cost- and time-effective, applicable for multi-scale mapping, allows incorporation of wide variety of covariates, and provides accurate quantitative prediction of wide range of soil-landscape attributes that are necessary for hydrologic models, land and ecosystem management decisions, and hazard assessment.

Identification of optimal soil hydraulic functions and parameters for predicting soil moisture

Science.gov (United States)

We examined the accuracy of several commonly used soil hydraulic functions and associated parameters for predicting observed soil moisture data. We used six combined methods formed by three commonly used soil hydraulic functions – i.e., Brooks and Corey (1964) (BC), Campbell (19...

Ecological effects of combined pollution associated with e-waste recycling on the composition and diversity of soil microbial communities.

Science.gov (United States)

Liu, Jun; He, Xiao-Xin; Lin, Xue-Rui; Chen, Wen-Ce; Zhou, Qi-Xing; Shu, Wen-Sheng; Huang, Li-Nan

2015-06-02

The crude processing of electronic waste (e-waste) has led to serious contamination in soils. While microorganisms may play a key role in remediation of the contaminated soils, the ecological effects of combined pollution (heavy metals, polychlorinated biphenyls, and polybrominated diphenyl ethers) on the composition and diversity of microbial communities remain unknown. In this study, a suite of e-waste contaminated soils were collected from Guiyu, China, and the indigenous microbial assemblages were profiled by 16S rRNA high-throughput sequencing and clone library analysis. Our data revealed significant differences in microbial taxonomic composition between the contaminated and the reference soils, with Proteobacteria, Acidobacteria, Bacteroidetes, and Firmicutes dominating the e-waste-affected communities. Genera previously identified as organic pollutants-degrading bacteria, such as Acinetobacter, Pseudomonas, and Alcanivorax, were frequently detected. Canonical correspondence analysis revealed that approximately 70% of the observed variation in microbial assemblages in the contaminated soils was explained by eight environmental variables (including soil physiochemical parameters and organic pollutants) together, among which moisture content, decabromodiphenyl ether (BDE-209), and copper were the major factors. These results provide the first detailed phylogenetic look at the microbial communities in e-waste contaminated soils, demonstrating that the complex combined pollution resulting from improper e-waste recycling may significantly alter soil microbiota.

Genome-wide association identifies multiple genomic regions associated with susceptibility to and control of ovine lentivirus.

Directory of Open Access Journals (Sweden)

Stephen N White

Full Text Available BACKGROUND: Like human immunodeficiency virus (HIV, ovine lentivirus (OvLV is macrophage-tropic and causes lifelong infection. OvLV infects one quarter of U.S. sheep and induces pneumonia and body condition wasting. There is no vaccine to prevent OvLV infection and no cost-effective treatment for infected animals. However, breed differences in prevalence and proviral concentration have indicated a genetic basis for susceptibility to OvLV. A recent study identified TMEM154 variants in OvLV susceptibility. The objective here was to identify additional loci associated with odds and/or control of OvLV infection. METHODOLOGY/PRINCIPAL FINDINGS: This genome-wide association study (GWAS included 964 sheep from Rambouillet, Polypay, and Columbia breeds with serological status and proviral concentration phenotypes. Analytic models accounted for breed and age, as well as genotype. This approach identified TMEM154 (nominal P=9.2×10(-7; empirical P=0.13, provided 12 additional genomic regions associated with odds of infection, and provided 13 regions associated with control of infection (all nominal P<1 × 10(-5. Rapid decline of linkage disequilibrium with distance suggested many regions included few genes each. Genes in regions associated with odds of infection included DPPA2/DPPA4 (empirical P=0.006, and SYTL3 (P=0.051. Genes in regions associated with control of infection included a zinc finger cluster (ZNF192, ZSCAN16, ZNF389, and ZNF165; P=0.001, C19orf42/TMEM38A (P=0.047, and DLGAP1 (P=0.092. CONCLUSIONS/SIGNIFICANCE: These associations provide targets for mutation discovery in sheep susceptibility to OvLV. Aside from TMEM154, these genes have not been associated previously with lentiviral infection in any species, to our knowledge. Further, data from other species suggest functional hypotheses for future testing of these genes in OvLV and other lentiviral infections. Specifically, SYTL3 binds and may regulate RAB27A, which is required for enveloped

Impacts of deficit irrigation and altered rooting patterns on soil structure and associated soil properties

Science.gov (United States)

A better understanding of belowground systems and overall management impacts on soil health is needed to improve crop production and long-term sustainability under deficit irrigation. This study investigates effects of deficit irrigation on rooting patterns in maize and subsequent impacts on soil pr...

Soil-landform-plant communities relationships of a periglacial landscape at Potter Peninsula, Maritime Antarctica

Science.gov (United States)

Poelking, E. L.; Schaefer, C. E. R.; Fernandes Filho, E. I.; de Andrade, A. M.; Spielmann, A. A.

2014-08-01

Integrated studies on the interplay between soils, periglacial geomorphology and plant communities are crucial for the understanding of climate change effects on terrestrial ecosystems of Maritime Antarctica, one of the most sensitive areas to global warming. Knowledge on physical environmental factors that influence plant communities can greatly benefit studies on monitoring climate change in Maritime Antarctica, where new ice-free areas are being constantly exposed, allowing plant growth and organic carbon inputs. The relationship between topography, plant communities and soils was investigated in Potter Peninsula, King George Island, Maritime Antarctica. We mapped the occurrence and distribution of plant communities and identified soil-landform-vegetation relationships. The vegetation map was obtained by classification of a Quickbird image, coupled with detailed landform and characterization of 18 soil profiles. The sub-formations were identified and classified, and we also determined the total elemental composition of lichens, mosses and grasses. Plant communities at Potter Peninsula occupy 23% of the ice-free area, at different landscape positions, showing decreasing diversity and biomass from the coastal zone to inland areas where sub-desert conditions prevail. There is a clear dependency between landform and vegetated soils. Soils with greater moisture or poorly drained, and acid to neutral pH, are favourable for mosses subformations. Saline, organic-matter rich ornithogenic soils of former penguin rookeries have greater biomass and diversity, with mixed associations of mosses and grasses, while stable felseenmeers and flat rocky cryoplanation surfaces are the preferred sites for Usnea and Himantormia lugubris lichens, at the highest surface. Lichens subformations cover the largest vegetated area, showing varying associations with mosses.

Bioindication in Urban Soils in Switzerland

Science.gov (United States)

Amossé, J.; Le Bayon, C.; Mitchell, E. A. D.; Gobat, J. M.

2012-04-01

Urban development leads to profound changes in ecosystem structure (e.g. biodiversity) and functioning (e.g. ecosystem services). While above-ground diversity is reasonably well studied much less is known about soil diversity, soil processes and more generally soil health in urban settings. Soil invertebrates are key actors of soil processes at different spatial and temporal scales and provide essential ecosystem services. These functions may be even more vital in stressed environments such as urban ecosystems. Despite the general recognition of the importance of soil organisms in ecosystems, soil trophic food webs are still poorly known and this is especially the case in urban settings. As urban soils are characterised by high fragmentation and stress (e.g. drought, pollution) the structure and functioning of soil communities is likely to be markedly different from that of natural soils. It is for example unclear if earthworms, whose roles in organic matter transformation and soil structuration is well documented in natural and semi-natural soils, are also widespread and active in urban soils. Bioindication is a powerful tool to assess the quality of the environment. It is complementary to classical physicochemical soil analysis or can be used as sole diagnostic tool in cases where these analyses cannot be performed. However little is known about the potential use of bioindicators in urban settings and especially it is unclear if methods developped in agriculture can be applied to urban soils. The development of reliable methods for assessing the quality of urban soils has been identified as a priority for policy making and urban management in Switzerland, a high-urbanized country. We therefore initiated a research project (Bioindication in Urban Soil - BUS). The project is organised around four parts: (i) typology of urban soils in a study Region (Neuchâtel), (ii) sampling of soil fauna and analysis of soil physicochemical properties, (iii) comparison of the

Soil mixing design methods and construction techniques for use in high organic soils.

Science.gov (United States)

2015-06-01

Organic soils present a difficult challenge for roadway designers and construction due to the high : compressibility of the soil structure and the often associated high water table and moisture content. For : other soft or loose inorganic soils, stab...

Urban legacies and soil management affect the concentration and speciation of trace metals in Los Angeles community garden soils

International Nuclear Information System (INIS)

Clarke, Lorraine Weller; Jenerette, G. Darrel; Bain, Daniel J.

2015-01-01

Heavy metals in urban soils can compromise human health, especially in urban gardens, where gardeners may ingest contaminated dust or crops. To identify patterns of urban garden metal contamination, we measured concentrations and bioavailability of Pb, As, and Cd in soils associated with twelve community gardens in Los Angeles County, CA. This included sequential extractions to partition metals among exchangeable, reducible, organic, or residual fractions. Proximity to road increased all metal concentrations, suggesting vehicle emissions sources. Reducible Pb increased with neighborhood age, suggesting leaded paint as a likely pollutant source. Exchangeable Cd and As both increased with road proximity. Only cultivated soils showed an increase in exchangeable As with road proximity, potentially due to reducing humic acid interactions while Cd bioavailability was mitigated by organic matter. Understanding the geochemical phases and metal bioavailability allows incorporation of contamination patterns into urban planning. - Highlights: • Road proximity, legacies, and management affect garden soil metal concentrations. • Soil near old houses had high reducible Pb, likely due to lead paint. • Pb, As, and Cd all increased with proximity to road. • As and Cd reacted with organic matter to become more or less bioavailable to crops. - Road proximity, legacies, and management affect garden soil metal concentrations. Soil near old houses had high reducible Pb due to lead paint, while all metals increased near the road

Harvesting soil with potatoes

DEFF Research Database (Denmark)

Egelyng, Henrik

2017-01-01

Norwegian authorities demand soil leaving potato packing plants to be deposited as waste. Depositing soil from potato processing plants is associated with significant cost for Norwegian producers. Therefore CYCLE investigated potato soil harvesting from an innovation and socio-economic perspective....

Genome-wide association study of blood pressure extremes identifies variant near UMOD associated with hypertension.

Directory of Open Access Journals (Sweden)

Sandosh Padmanabhan

2010-10-01

Full Text Available Hypertension is a heritable and major contributor to the global burden of disease. The sum of rare and common genetic variants robustly identified so far explain only 1%-2% of the population variation in BP and hypertension. This suggests the existence of more undiscovered common variants. We conducted a genome-wide association study in 1,621 hypertensive cases and 1,699 controls and follow-up validation analyses in 19,845 cases and 16,541 controls using an extreme case-control design. We identified a locus on chromosome 16 in the 5' region of Uromodulin (UMOD; rs13333226, combined P value of 3.6 × 10⁻¹¹. The minor G allele is associated with a lower risk of hypertension (OR [95%CI]: 0.87 [0.84-0.91], reduced urinary uromodulin excretion, better renal function; and each copy of the G allele is associated with a 7.7% reduction in risk of CVD events after adjusting for age, sex, BMI, and smoking status (H.R. = 0.923, 95% CI 0.860-0.991; p = 0.027. In a subset of 13,446 individuals with estimated glomerular filtration rate (eGFR measurements, we show that rs13333226 is independently associated with hypertension (unadjusted for eGFR: 0.89 [0.83-0.96], p = 0.004; after eGFR adjustment: 0.89 [0.83-0.96], p = 0.003. In clinical functional studies, we also consistently show the minor G allele is associated with lower urinary uromodulin excretion. The exclusive expression of uromodulin in the thick portion of the ascending limb of Henle suggests a putative role of this variant in hypertension through an effect on sodium homeostasis. The newly discovered UMOD locus for hypertension has the potential to give new insights into the role of uromodulin in BP regulation and to identify novel drugable targets for reducing cardiovascular risk.

Short-Term Changes in Fertility Attributes and Soil Organic Matter Caused by the Addition of EM Bokashis in Two Tropical Soils

Directory of Open Access Journals (Sweden)

Carlos Eduardo Pacheco Lima

2015-01-01

Full Text Available The present work aimed to evaluate the behavior of ten fertility attributes of soil organic matter physical fractions and total organic carbon upon addition of three EM Bokashis to a Rhodic Ferralsol (FRr and a Dystric Cambisol (CMd. An experiment was carried out in greenhouse in which the soils were placed into plastic trays and cultivated with tomato. A completely randomized design was used with four repetitions and factorial scheme of 2 × 3 + 2, consisting of two soils (FRr and CMd, three EM Bokashis (Poultry Manure Bokashi (BPM; CNPH Bokashi (BC; and Cattle Manure Bokashi (BCM, and two controls (both soils without addition of Bokashi. The following fertility attributes were evaluated: pH, Ca2+, Mg2+, K+, Na+, P, SB, H + Al, CEC, and V. Particulate organic carbon (POC and mineral-associated organic carbon (MOC and total organic carbon (TOC were also investigated. Finally, the Principal Component Analysis was conducted in order to identify possible patterns related to soils when fertilized with EM Bokashi. The addition of EM Bokashi increased the soil fertility and contents of POC. Different EM Bokashi presents distinguished effects on each soil. The PCA suggests that BPM presents higher capacity to modify the analyzed chemical attributes.

Evaluating the efficacy of a centrifugation-flotation method for extracting Ascaris ova from soil

DEFF Research Database (Denmark)

Cranston, Imogen; Teoh, Penelope J.; baker, Sarah M.

2016-01-01

method to extract STH ova from soil makes it challenging to examine whether the use of latrines may or may not have an effect on environmental contamination with ova. The present study evaluated the recovery rate of a method developed to extract STH ova from soil. Methods: The adapted centrifugation...... with increasing soil moisture content, particle size and organic matter content. The association between recovery rate and organic matter content was statistically significant. Conclusions: The present study identified a low recovery rate for an adapted centrifugation-flotation method, although this was similar...

Soil Degradation Processes; Procesos de Degradacion del Suelo

Energy Technology Data Exchange (ETDEWEB)

Nunez Crespi, S; Perez Martinez, M; Cuesta Santianes, M J; Cabrera Jimenez, J A

2007-12-28

In the European communication entitled Towards a Thematic Strategy for Soil Protection, eight main threats to soil were identified: contamination, erosion, loss of organic matter, compaction, salinization; hydro-geological risks, soil sealing, and decline in biodiversity. The main purpose of this report is to provide the current state of knowledge of the soil degradation processes both, in the European Community scale and, particularly, in the Spanish territory. Furthermore, the main research project information related to soil degradation processes is also included, identifying the main actors involved in soil scientific research and development. (Author) 66 refs.

Soil mechanics and analysis of soils overlying cavitose bedrock

International Nuclear Information System (INIS)

Drumm, E.C.

1987-08-01

The stability of the residual soils existing at the West Chestnut Ridge Site, Oak Ridge Reservation, Tennessee, was evaluated. The weathered bedrock below this residual soil contains numerous solution cavities, and several karst features were identified. The West Chestnut Ridge site was evaluated with respect to deformation and collapse of the residual soil into the bedrock cavities. A finite element analysis investigated the effects of bedrock cavity radius, thickness of soil overburden, and surface surcharge upon the deformational and stability characteristics of the residual soil. The results indicate that for small cavity radii, the thickness of the soil cover has little effect on the zone of yielded soil. For large cavity radii, a smaller zone of distressed soil occurs under thick soil cover than under thin soil cover. Dimensionless curves are presented to enable the prediction of the vertical extent of the zone of yielded soil for a range of site geometries. Although the thick soil deposits (100 feet or greater) typically found on the ridges result in high stresses adjacent to the cavity, the area of the distressed or yielded soil is small and unlikely to extend to the surface. In addition, the surface deformation or subsidence is expected to be minimal. Thus, the siting of waste facilities on the ridges where the overburden is maximum would tend to reduce the effects of deformation into the cavities. 29 refs., 37 figs., 7 tabs

Biologically induced formation of realgar deposits in soil

Science.gov (United States)

Drahota, Petr; Mikutta, Christian; Falteisek, Lukáš; Duchoslav, Vojtěch; Klementová, Mariana

2017-12-01

The formation of realgar (As4S4) has recently been identified as a prominent As sequestration pathway in the naturally As-enriched wetland soil at the Mokrsko geochemical anomaly (Czech Republic). Here we used bulk soil and pore water analyses, synchrotron X-ray absorption spectroscopy, S isotopes, and DNA extractions to determine the distribution and speciation of As as a function of soil depth and metabolic properties of microbial communities in wetland soil profiles. Total solid-phase analyses showed that As was strongly correlated with organic matter, caused by a considerable As accumulation (up to 21 g kg-1) in an organic-rich soil horizon artificially buried in 1980 at a depth of ∼80 cm. Extended X-ray absorption fine structure spectroscopy revealed that As in the buried organic horizon was predominantly present as realgar occurring as nanocrystallites (50-100 nm) in millimeter-scale deposits associated with particulate organic matter. The realgar was depleted in the 34S isotope by 9-12.5‰ relative to the aqueous sulfate supplied to the soil, implying its biologically induced formation. Analysis of the microbial communities by 16S rDNA sequencing showed that realgar deposits formed in strictly anaerobic organic-rich domains dominated by sulfate-reducing and fermenting metabolisms. In contrast, realgar deposits were not observed in similar domains with even small contributions of oxidative metabolisms. No association of realgar with specific microbial species was observed. Our investigation shows that strongly reducing microenvironments associated with buried organic matter are significant biogeochemical traps for As, with an estimated As accumulation rate of 61 g As m-2 yr-1. Nevertheless the production of biologically induced realgar in these microenvironments is too slow to lower As groundwater concentrations at our field site (∼6790 mg L-1). Our study demonstrates the intricate link between geochemistry and microbial community dynamics in wetland

Climate-smart soils

Science.gov (United States)

Paustian, Keith; Lehmann, Johannes; Ogle, Stephen; Reay, David; Robertson, G. Philip; Smith, Pete

2016-04-01

Soils are integral to the function of all terrestrial ecosystems and to food and fibre production. An overlooked aspect of soils is their potential to mitigate greenhouse gas emissions. Although proven practices exist, the implementation of soil-based greenhouse gas mitigation activities are at an early stage and accurately quantifying emissions and reductions remains a substantial challenge. Emerging research and information technology developments provide the potential for a broader inclusion of soils in greenhouse gas policies. Here we highlight ‘state of the art’ soil greenhouse gas research, summarize mitigation practices and potentials, identify gaps in data and understanding and suggest ways to close such gaps through new research, technology and collaboration.

Urban legacies and soil management affect the concentration and speciation of trace metals in Los Angeles community garden soils.

Science.gov (United States)

Clarke, Lorraine Weller; Jenerette, G Darrel; Bain, Daniel J

2015-02-01

Heavy metals in urban soils can compromise human health, especially in urban gardens, where gardeners may ingest contaminated dust or crops. To identify patterns of urban garden metal contamination, we measured concentrations and bioavailability of Pb, As, and Cd in soils associated with twelve community gardens in Los Angeles County, CA. This included sequential extractions to partition metals among exchangeable, reducible, organic, or residual fractions. Proximity to road increased all metal concentrations, suggesting vehicle emissions sources. Reducible Pb increased with neighborhood age, suggesting leaded paint as a likely pollutant source. Exchangeable Cd and As both increased with road proximity. Only cultivated soils showed an increase in exchangeable As with road proximity, potentially due to reducing humic acid interactions while Cd bioavailability was mitigated by organic matter. Understanding the geochemical phases and metal bioavailability allows incorporation of contamination patterns into urban planning. Copyright © 2014 Elsevier Ltd. All rights reserved.

Methodology to assess the radiological sensitivity of soils: Application to Spanish soils

International Nuclear Information System (INIS)

Trueba Alonso, C.

2005-01-01

A methodology, based on standard physical and chemical soil properties, has been developed to estimate the radiological sensitivity of soils to a 137 C s and 90 S r contamination. In this framework, the soil radiological sensitivity is defined as the soil capability to mobilise or to retain these radionuclides. The purpose of this methodology is to assess, in terms of radiological sensitivity indexes, the behaviour of 137 C s and 90 S r in soils and their fluxes to man, considering two exposure pathways, the external irradiation exposure and the internal exposure from ingestion. The methodology is applied to the great variety of soil types found in Spain, where the soil profile is the reference unit for the assessment. The results for these soil types show, that their basic soil properties are the key to categorise the radiological sensitivity according to the risks considered. The final categorisation allows to identify soils specially sensible and improves the radiological impact assessment predictions. (Author)

Soil Microorganisms Alleviate the Allelochemical Effects of a Thyme Monoterpene on the Performance of an Associated Grass Species

OpenAIRE

Ehlers, Bodil K.

2011-01-01

Background Plant allelochemicals released into the soil can significantly impact the performance of associated plant species thereby affecting their competitive ability. Soil microbes can potentially affect the interaction between plant and plant chemicals by degrading the allelochemicals. However, most often plant-plant chemical interactions are studied using filter paper bioassays examining the pair-wise interaction between a plant and a plant chemical, not taking into account the potential...

Geographical and pedological drivers of distribution and risks to soil fauna of seven metals (Cd, Cu, Cr, Ni, Pb, V and Zn) in British soils

International Nuclear Information System (INIS)

Spurgeon, David J.; Rowland, Philip; Ainsworth, Gillian; Rothery, Peter; Long, Sara; Black, Helaina I.J.

2008-01-01

Concentrations of seven metals were measured in over 1000 samples as part of an integrated survey. Sixteen metal pairs were significantly positively correlated. Cluster analysis identified two clusters. Metals from the largest (Cr, Cu, Ni, V, Zn), but not the smallest (Cd, Pb) cluster were significantly negatively correlated with spatial location and soil pH and organic matter content. Cd and Pb were not correlated with these parameters, due possibly to the masking effect of recent extensive release. Analysis of trends with soil properties in different habitats indicated that general trends may not necessarily be applicable to all areas. A risk assessment indicated that Zn poses the most widespread direct risk to soil fauna and Cd the least. Any risks associated with high metal concentrations are, however, likely to be greatest in habitats such as arable and horticultural, improved grassland and built up areas where soil metal concentrations are more frequently elevated. - Metal distributions and risks explained by balance of sources and soil property effects on fate

Soil Physical and Chemical Properties in Epigeal Termite Mounds in Pastures

Directory of Open Access Journals (Sweden)

Sandra Santana de Lima

2018-03-01

Full Text Available ABSTRACT We characterized soil physical and chemical properties and soil organic matter in epigeal termite mounds in pastures to evaluate the changes promoted by termites in comparison to an adjacent area. We selected seven active epigeal termite mounds in the municipality of Seropédica, state of Rio de Janeiro, Brazil. Soil samples were collected from top, center and base positions of each mound, at 0.50 and 1.50 m distance from the base of the mound. We identified individuals of the genus Embiratermes, Velocitermes, and Orthognathotermes. The humin fraction predominated over the humic and fulvic acid fractions both in mounds and adjacent soil. The amount of organic matter and the mineral fractions (mineral-associated organic carbon - MOC varied among builder species. The studied chemical attributes point to a higher concentration of nutrients in the mounds than in the adjacent soil.

Uranium soils integrated demonstration: Soil characterization project report

International Nuclear Information System (INIS)

Cunnane, J.C.; Gill, V.R.; Lee, S.Y.; Morris, D.E.; Nickelson, M.D.; Perry, D.L.; Tidwell, V.C.

1993-08-01

An Integrated Demonstration Program, hosted by the Fernald Environmental Management Project (FEMP), has been established for investigating technologies applicable to the characterization and remediation of soils contaminated with uranium. Critical to the design of relevant treatment technologies is detailed information on the chemical and physical characteristics of the uranium waste-form. To address this need a soil sampling and characterization program was initiated which makes use of a variety of standard analytical techniques coupled with state-of-the-art microscopy and spectroscopy techniques. Sample representativeness is evaluated through the development of conceptual models in an effort to identify and understand those geochemical processes governing the behavior of uranium in FEMP soils. Many of the initial results have significant implications for the design of soil treatment technologies for application at the FEMP

Uranium soils integrated demonstration: Soil characterization project report

Energy Technology Data Exchange (ETDEWEB)

Cunnane, J.C. [Argonne National Lab., IL (United States); Gill, V.R. [Fernald Environmental Restoration Management Corp., Cincinnati, OH (United States); Lee, S.Y. [Oak Ridge National Lab., TN (United States); Morris, D.E. [Los Alamos National Lab., NM (United States); Nickelson, M.D. [HAZWRAP, Oak Ridge, TN (United States); Perry, D.L. [Lawrence Berkeley Lab., CA (United States); Tidwell, V.C. [Sandia National Labs., Albuquerque, NM (United States)

1993-08-01

An Integrated Demonstration Program, hosted by the Fernald Environmental Management Project (FEMP), has been established for investigating technologies applicable to the characterization and remediation of soils contaminated with uranium. Critical to the design of relevant treatment technologies is detailed information on the chemical and physical characteristics of the uranium waste-form. To address this need a soil sampling and characterization program was initiated which makes use of a variety of standard analytical techniques coupled with state-of-the-art microscopy and spectroscopy techniques. Sample representativeness is evaluated through the development of conceptual models in an effort to identify and understand those geochemical processes governing the behavior of uranium in FEMP soils. Many of the initial results have significant implications for the design of soil treatment technologies for application at the FEMP.

Identifying novel hypoxia-associated markers of chemoresistance in ovarian cancer.

LENUS (Irish Health Repository)

McEvoy, Lynda M

2015-01-01

Ovarian cancer is associated with poor long-term survival due to late diagnosis and development of chemoresistance. Tumour hypoxia is associated with many features of tumour aggressiveness including increased cellular proliferation, inhibition of apoptosis, increased invasion and metastasis, and chemoresistance, mostly mediated through hypoxia-inducible factor (HIF)-1α. While HIF-1α has been associated with platinum resistance in a variety of cancers, including ovarian, relatively little is known about the importance of the duration of hypoxia. Similarly, the gene pathways activated in ovarian cancer which cause chemoresistance as a result of hypoxia are poorly understood. This study aimed to firstly investigate the effect of hypoxia duration on resistance to cisplatin in an ovarian cancer chemoresistance cell line model and to identify genes whose expression was associated with hypoxia-induced chemoresistance.

Genome-wide association study identifies three novel genetic markers associated with elite endurance performance

DEFF Research Database (Denmark)

Ahmetov, Ii; Kulemin, Na; Popov, Dv

2015-01-01

To investigate the association between multiple single-nucleotide polymorphisms (SNPs), aerobic performance and elite endurance athlete status in Russians. By using GWAS approach, we examined the association between 1,140,419 SNPs and relative maximal oxygen consumption rate ([Formula: see text]O2......max) in 80 international-level Russian endurance athletes (46 males and 34 females). To validate obtained results, we further performed case-control studies by comparing the frequencies of the most significant SNPs (with P endurance athletes and opposite cohorts (192...... Russian controls, 1367 European controls, and 230 Russian power athletes). Initially, six 'endurance alleles' were identified showing discrete associations with [Formula: see text]O2max both in males and females. Next, case-control studies resulted in remaining three SNPs (NFIA-AS2 rs1572312, TSHR rs...

Soil nutrient ecology associated with Acacia sieberana at different ...

African Journals Online (AJOL)

Reports on a study conducted on three aspects of soil nutrient ecology in an Acacia sieberana savanna. Information was collected about the effects of a savanna tree species on soil fertility, and the influence of savanna trees on mycorrhizal abundance was investigated. Mycorrhizal dependence of the indigenous African ...

Disease Suppressive Soils: New Insights from the Soil Microbiome.

Science.gov (United States)

Schlatter, Daniel; Kinkel, Linda; Thomashow, Linda; Weller, David; Paulitz, Timothy

2017-11-01

Soils suppressive to soilborne pathogens have been identified worldwide for almost 60 years and attributed mainly to suppressive or antagonistic microorganisms. Rather than identifying, testing and applying potential biocontrol agents in an inundative fashion, research into suppressive soils has attempted to understand how indigenous microbiomes can reduce disease, even in the presence of the pathogen, susceptible host, and favorable environment. Recent advances in next-generation sequencing of microbiomes have provided new tools to reexamine and further characterize the nature of these soils. Two general types of suppression have been described: specific and general suppression, and theories have been developed around these two models. In this review, we will present three examples of currently-studied model systems with features representative of specific and general suppressiveness: suppression to take-all (Gaeumannomyces graminis var. tritici), Rhizoctonia bare patch of wheat (Rhizoctonia solani AG-8), and Streptomyces. To compare and contrast the two models of general versus specific suppression, we propose a number of hypotheses about the nature and ecology of microbial populations and communities of suppressive soils. We outline the potential and limitations of new molecular techniques that can provide novel ways of testing these hypotheses. Finally, we consider how this greater understanding of the phytobiome can facilitate sustainable disease management in agriculture by harnessing the potential of indigenous soil microbes.

Potentials and challenges associated with automated closed dynamic chamber measurements of soil CO2 fluxes

Science.gov (United States)

Görres, Carolyn-Monika; Kammann, Claudia; Ceulemans, Reinhart

2015-04-01

Soil respiration fluxes are influenced by natural factors such as climate and soil type, but also by anthropogenic activities in managed ecosystems. As a result, soil CO2 fluxes show a large intra- and interannual as well as intra- and intersite variability. Most of the available soil CO2 flux data giving insights into this variability have been measured with manually closed static chambers, but technological advances in the past 15 years have also led to an increased use of automated closed chamber systems. The great advantage of automated chambers in comparison to manually operated chambers is the higher temporal resolution of the flux data. This is especially important if we want to better understand the effects of short-term events, e.g. fertilization or heavy rainfall, on soil CO2 flux variability. However, the chamber method is an invasive measurement method which can potentially alter soil CO2 fluxes and lead to biased measurement results. In the peer-reviewed literature, many papers compare the field performance and results of different closed static chamber designs, or compare manual chambers with automated chamber systems, to identify potential biases in CO2 flux measurements, and thus help to reduce uncertainties in the flux data. However, inter-comparisons of different automated closed dynamic chamber systems are still lacking. Here we are going to present a field comparison of the most-cited automated chamber system, the LI-8100A Automated Soil Flux System, with the also commercially available Greenhouse Gas Monitoring System AGPS. Both measurement systems were installed side by side at a recently harvested poplar bioenergy plantation (POPFULL, http://uahost.uantwerpen.be/popfull/) from April 2014 until August 2014. The plantation provided optimal comparison conditions with a bare field situation after the harvest and a regrowing canopy resulting in a broad variety of microclimates. Furthermore, the plantation was planted in a double-row system with

Modeling state-level soil carbon emission factors under various scenarios for direct land use change associated with United States biofuel feedstock production

International Nuclear Information System (INIS)

Kwon, Ho-Young; Mueller, Steffen; Dunn, Jennifer B.; Wander, Michelle M.

2013-01-01

Current estimates of life cycle greenhouse gas emissions of biofuels produced in the US can be improved by refining soil C emission factors (EF; C emissions per land area per year) for direct land use change associated with different biofuel feedstock scenarios. We developed a modeling framework to estimate these EFs at the state-level by utilizing remote sensing data, national statistics databases, and a surrogate model for CENTURY's soil organic C dynamics submodel (SCSOC). We estimated the forward change in soil C concentration within the 0–30 cm depth and computed the associated EFs for the 2011 to 2040 period for croplands, grasslands or pasture/hay, croplands/conservation reserve, and forests that were suited to produce any of four possible biofuel feedstock systems [corn (Zea Mays L)-corn, corn–corn with stover harvest, switchgrass (Panicum virgatum L), and miscanthus (Miscanthus × giganteus Greef et Deuter)]. Our results predict smaller losses or even modest gains in sequestration for corn based systems, particularly on existing croplands, than previous efforts and support assertions that production of perennial grasses will lead to negative emissions in most situations and that conversion of forest or established grasslands to biofuel production would likely produce net emissions. The proposed framework and use of the SCSOC provide transparency and relative simplicity that permit users to easily modify model inputs to inform biofuel feedstock production targets set forth by policy. -- Highlights: ► We model regionalized feedstock-specific United States soil C emission factors. ► We simulate soil C changes from direct land use change associated with biofuel feedstock production. ► Corn, corn-stover, and perennial grass biofuel feedstocks grown in croplands maintain soil C levels. ► Converting grasslands to bioenergy crops risks soil C loss. ► This modeling framework yields more refined soil C emissions than national-level emissions

Use of small scale electrical resistivity tomography to identify soil-root interactions during deficit irrigation

Science.gov (United States)

Vanella, D.; Cassiani, G.; Busato, L.; Boaga, J.; Barbagallo, S.; Binley, A.; Consoli, S.

2018-01-01

Plant roots activity affect the exchanges of mass and energy between the soil and atmosphere. However, it is challenging to monitor the activity of the root-zone because roots are not visible from the soil surface, and root systems undergo spatial and temporal variations in response to internal and external conditions. Therefore, measurements of the activity of root systems are interesting to ecohydrologists in general, and are especially important for specific applications, such as irrigation water management. This study demonstrates the use of small scale three-dimensional (3-D) electrical resistivity tomography (ERT) to monitor the root-zone of orange trees irrigated by two different regimes: (i) full rate, in which 100% of the crop evapotranspiration (ETc) is provided; and (ii) partial root-zone drying (PRD), in which 50% of ETc is supplied to alternate sides of the tree. We performed time-lapse 3-D ERT measurements on these trees from 5 June to 24 September 2015, and compared the long-term and short-term changes before, during, and after irrigation events. Given the small changes in soil temperature and pore water electrical conductivity, we interpreted changes of soil electrical resistivity from 3-D ERT data as proxies for changes in soil water content. The ERT results are consistent with measurements of transpiration flux and soil temperature. The changes in electrical resistivity obtained from ERT measurements in this case study indicate that root water uptake (RWU) processes occur at the 0.1 m scale, and highlight the impact of different irrigation schemes.

Identifying and mitigating risks for agricultural injury associated with obesity

Directory of Open Access Journals (Sweden)

Nathan King

2016-12-01

Full Text Available In some occupational contexts overweight and obesity have been identified as risk factors for injury. The purpose of this study was to examine this hypothesis within farm work environments and then to identify specific opportunities for environmental modification as a preventive strategy. Data on farm-related injuries, height and weight used to calculate body mass index (BMI, and demographic characteristics were from the Phase 2 baseline survey of the Saskatchewan Farm Injury Cohort; a large cross-sectional mail-based survey conducted in Saskatchewan, Canada from January through May 2013. Multivariable logistic regression was used to examine associations between BMI and injury. Injury narratives were explored qualitatively. Findings were inconsistent and differed according to gender. Among women (n = 927, having overweight (adjusted OR: 2.94; 95% CI: 1.29 to 6.70 but not obesity (1.10; 95% CI: 0.35 to 3.43 was associated with an increased odds of incurring a farm-related injury. No strong or statistically significant effects were observed for men (n = 1406 with overweight or obesity. While injury-related challenges associated with obesity have been addressed in other occupational settings via modification of the worksite, such strategies are challenging to implement in farm settings because of the diversity of work tasks and associated hazards. We conclude that the acute effects of overweight in terms of injury do require consideration in agricultural populations, but these should also be viewed with a differentiation based on gender.

GEOEPIDERM – AN ECOLOGICAL CONCEPT THAT INTEGRATES SOIL COVER WITH ASSOCIATED LAND SURFACE COMPONENTS

Directory of Open Access Journals (Sweden)

I. Munteanu

2008-10-01

Full Text Available Based on the new concept of the “Epiderm of the Earth” introduced by the 2006 edition of the WRB-SR, the idea of “geoepiderm” has been developed. Besides its holistic meaning, by including both soil and non-soil materials found in the first 2 meters of the land surface, the term “geoepiderm” has a strong ecological sense, by suggesting similarity with the skin of the living organisms, as such, this concept is fully concordant with that of “Gaia” (Living Earth developed by James Lovelock. According to the main pedo-ecological characteristics of the soil and not soil coverings from the earth surface, ten kinds (classes of ‘geoepiderms” have been identified:1 – Protoderma (Entiderma– the primitive (emerging geoepiderm (mainly non-soil materials; five main subtypes: a Regoderma, b Leptoderma, c Areniderma, d Fluviderma and e Gleyoderma, were identified;2 – Cryoderma (Geliderma – geoepiderm of cold, mainly artic and subartic, regions with mean annual soil temperature <00C (often with perennial frozen subsoil - permafrost:3 – Arididerma – geoepiderm of arid regions and salt affected lands with limited or scarce available moisture; two subtypes: a Desertiderma, b Saliderma4 – Inceptiderma (or Juvenilederma – with 2 subtypes: a Cambiderma – a young (incipiently developed geoepiderm and b Andiderma, geoepiderm developed in volcanic materials;5 – Euderma – nutrient rich geoepiderm with two main subtypes: a Cherniderma (or Molliderma and b Luviderma (or Alfiderma;6 – Oligoderma – geoepiderm with low macro-nutrient and weatherable minerals content with 2 subtypes: a Podziderma (or Spodiderma and b Acriderma (or Ultiderma;7 – Ferriderma (Oxiderma or Senilederma – geoepiderm strongly weathered and with iron and aluminium hydroxides enrichment and low weatherable minerals reserve;8 – Vertiderma (Contractilederma – Contractile geoepiderm, developed from swelling clays;9 – Histoderma (Organiderma �

Adapting the Caesium-137 technique to document soil redistribution rates associated with traditional cultivation practices in Haiti.

Science.gov (United States)

Velasco, H; Astorga, R Torres; Joseph, D; Antoine, J S; Mabit, L; Toloza, A; Dercon, G; Walling, Des E

2018-03-01

Large-scale deforestation, intensive land use and unfavourable rainfall conditions are responsible for significant continuous degradation of the Haitian uplands. To develop soil conservation strategies, simple and cost-effective methods are needed to assess rates of soil loss from farmland in Haiti. The fallout radionuclide caesium-137 ( 137 Cs) provides one such means of documenting medium-term soil redistribution rates. In this contribution, the authors report the first use in Haiti of 137 Cs measurements to document soil redistribution rates and the associated pattern of erosion/sedimentation rates along typical hillslopes within a traditional upland Haitian farming area. The local 137 Cs reference inventory, measured at an adjacent undisturbed flat area, was 670 Bq m -2 (SD = 100 Bq m -2 , CV = 15%, n = 7). Within the study area, where cultivation commenced in 1992 after deforestation, three representative downslope transects were sampled. These were characterized by 137 Cs inventories ranging from 190 to 2200 Bq m -2 . Although, the study area was cultivated by the local farmers, the 137 Cs depth distributions obtained from the area differed markedly from those expected from a cultivated area. They showed little evidence of tillage mixing within the upper part of the soil or, more particularly, of the near-uniform activities normally associated with the plough layer or cultivation horizon. They were very similar to that found at the reference site and were characterized by high 137 Cs activities at the surface and much lower activities at greater depths. This situation is thought to reflect the traditional manual tillage practices which cause limited disturbance and mixing of the upper part of the soil. It precluded the use of the conversion models normally used to estimate soil redistribution rates from 137 Cs measurements on cultivated soils and the Diffusion and Migration conversion model frequently used for uncultivated soils was modified for

Soil forensics: How far can soil clay analysis distinguish between soil vestiges?

Science.gov (United States)

Corrêa, R S; Melo, V F; Abreu, G G F; Sousa, M H; Chaker, J A; Gomes, J A

2018-03-01

Soil traces are useful as forensic evidences because they frequently adhere to individuals and objects associated with crimes and can place or discard a suspect at/from a crime scene. Soil is a mixture of organic and inorganic components and among them soil clay contains signatures that make it reliable as forensic evidence. In this study, we hypothesized that soils can be forensically distinguished through the analysis of their clay fraction alone, and that samples of the same soil type can be consistently distinguished according to the distance they were collected from each other. To test these hypotheses 16 Oxisol samples were collected at distances of between 2m and 1.000m, and 16 Inceptisol samples were collected at distances of between 2m and 300m from each other. Clay fractions were extracted from soil samples and analyzed for hyperspectral color reflectance (HSI), X-ray diffraction crystallographic (XRD), and for contents of iron oxides, kaolinite and gibbsite. The dataset was submitted to multivariate analysis and results were from 65% to 100% effective to distinguish between samples from the two soil types. Both soil types could be consistently distinguished for forensic purposes according to the distance that samples were collected from each other: 1000m for Oxisol and 10m for Inceptisol. Clay color and XRD analysis were the most effective techniques to distinguish clay samples, and Inceptisol samples were more easily distinguished than Oxisol samples. Soil forensics seems a promising field for soil scientists as soil clay can be useful as forensic evidence by using routine analytical techniques from soil science. Copyright © 2017 The Chartered Society of Forensic Sciences. Published by Elsevier B.V. All rights reserved.

Genome-wide association study identifies a novel canine glaucoma locus.

Directory of Open Access Journals (Sweden)

Saija J Ahonen

Full Text Available Glaucoma is an optic neuropathy and one of the leading causes of blindness. Its hereditary forms are classified into primary closed-angle (PCAG, primary open-angle (POAG and primary congenital glaucoma (PCG. Although many loci have been mapped in human, only a few genes have been identified that are associated with the development of glaucoma and the genetic basis of the disease remains poorly understood. Glaucoma has also been described in many dog breeds, including Dandie Dinmont Terriers (DDT in which it is a late-onset (>7 years disease. We designed clinical and genetic studies to better define the clinical features of glaucoma in the DDT and to identify the genetic cause. Clinical diagnosis was based on ophthalmic examinations of the affected dogs and 18 additionally investigated unaffected DDTs. We collected DNA from over 400 DTTs and a genome wide association study was performed in a cohort of 23 affected and 23 controls, followed by a fine mapping, a replication study and candidate gene sequencing. The clinical study suggested that ocular abnormalities including abnormal iridocorneal angles and pectinate ligament dysplasia are common (50% and 72%, respectively in the breed and the disease resembles human PCAG. The genetic study identified a novel 9.5 Mb locus on canine chromosome 8 including the 1.6 Mb best associated region (p = 1.63 × 10(-10, OR = 32 for homozygosity. Mutation screening in five candidate genes did not reveal any causative variants. This study indicates that although ocular abnormalities are common in DDTs, the genetic risk for glaucoma is conferred by a novel locus on CFA8. The canine locus shares synteny to a region in human chromosome 14q, which harbors several loci associated with POAG and PCG. Our study reveals a new locus for canine glaucoma and ongoing molecular studies will likely help to understand the genetic etiology of the disease.

Soil-landform-plant-community relationships of a periglacial landscape on Potter Peninsula, maritime Antarctica

Science.gov (United States)

Poelking, E. L.; Schaefer, C. E. R.; Fernandes Filho, E. I.; de Andrade, A. M.; Spielmann, A. A.

2015-05-01

Integrated studies on the interplay between soils, periglacial geomorphology and plant communities are crucial for the understanding of climate change effects on terrestrial ecosystems of maritime Antarctica, one of the most sensitive areas to global warming. Knowledge on physical environmental factors that influence plant communities can greatly benefit studies on the monitoring of climate change in maritime Antarctica, where new ice-free areas are being constantly exposed, allowing plant growth and organic carbon inputs. The relationship between topography, plant communities and soils was investigated on Potter Peninsula, King George Island, maritime Antarctica. We mapped the occurrence and distribution of plant communities and identified soil-landform-vegetation relationships. The vegetation map was obtained by classification of a QuickBird image, coupled with detailed landform and characterization of 18 soil profiles. The sub-formations were identified and classified, and we also determined the total elemental composition of lichens, mosses and grasses. Plant communities on Potter Peninsula occupy 23% of the ice-free area, at different landscape positions, showing decreasing diversity and biomass from the coastal zone to inland areas where sub-desert conditions prevail. There is a clear dependency between landform and vegetated soils. Soils that have greater moisture or are poorly drained, and with acid to neutral pH, are favourable for moss sub-formations. Saline, organic-matter-rich ornithogenic soils of former penguin rookeries have greater biomass and diversity, with mixed associations of mosses and grasses, while stable felsenmeers and flat rocky cryoplanation surfaces are the preferred sites for Usnea and Himantormia lugubris lichens at the highest surface. Lichens sub-formations cover the largest vegetated area, showing varying associations with mosses.

100-FR-3 groundwater/soil gas supplemental limited field investigation report

International Nuclear Information System (INIS)

1996-04-01

In 1993, a Limited Field Investigation (LFI) was conducted for the 100-FR-3 Operable Unit which identified trichloroethylene (TCE) as a contaminant of potential concern (COPC) (DOE-RL 1994). In groundwater samples collected for the LFI, TCE was detected in well 199-177-1 at a concentration exceeding the U.S. Environmental Protection Agency (EPA) maximum contaminant level (5 μg/L) and Washington State groundwater criteria (3 μg/L). With the concurrence of the EPA and the Washington State Department of Ecology (Ecology), a supplemental LFI was conducted to determine the extent and potential source of TCE groundwater contamination associated with the 100-FR-3 Operable Unit. This report summarizes the activities and results of the groundwater/soil gas supplemental LFI for the 100-FR-3 Operable Unit. The primary objective of this investigation was to assess the lateral distribution of TCE in shallow (3 to 5 ft below the water table) groundwater associated with the 100-FR-3 Operable Unit. The second objective was to assess soil gas (3 to 5 concentrations in the study area in an attempt to identify potential sources of TCE and develop a correlation between soil gas and groundwater concentrations). Finally, the third objective of the investigation was to refine the site conceptual model

A meta-analysis of genome-wide association studies to identify prostate cancer susceptibility loci associated with aggressive and non-aggressive disease

DEFF Research Database (Denmark)

Amin Al Olama, Ali; Kote-Jarai, Zsofia; Schumacher, Fredrick R

2013-01-01

Genome-wide association studies (GWAS) have identified multiple common genetic variants associated with an increased risk of prostate cancer (PrCa), but these explain less than one-third of the heritability. To identify further susceptibility alleles, we conducted a meta-analysis of four GWAS inc...

Soil crusting regulator characteristics of some allic humid tropical soils from Colombia

International Nuclear Information System (INIS)

Arias, Dora M; Madero E E; Amezquita E

2001-01-01

It was collected soil samples within 5 cm of the surface from Amazonia soils in Caqueta (Macagual); Orinoquia in Meta (Carimagua), Casanare (Matazul) and Vichada (La Primavera); and in Andean region in Cauca (San Isidro) and Valle (CIAT, Palmira). In each of those sites, the International Center for Tropical Agriculture (CIAT) has many experiments to know the impact of land husbandry, leguminous associations and rotations and mulches on natural system. After evaluating weighed particle size, sand particle size, soil organic matter, iron, aluminum and silicon oxides, and fertility, it could cluster in three groups according to those characteristics and their importance in governing soil hazard crusting: la Primavera and Carimagua (high organic matter, oxides and fine sand but low in clay); Matazul and Macagual (low in organic matter, oxides and clay but variable sand values); and San Isidro (the greatest in Al 2 O 3 concentrations, high in Fe 2 O 3 clay and fine sand but the poorest in soil organic matter). Soil organic matter contents were significantly associated with the kind of management

Comparative Economics of Soil and Associated Nutrient loss by ...

African Journals Online (AJOL)

TEKWA IJASINI JOHN

Gichuru, M. P., A. Bationo, M. A. Bakunda, H. C. Goma,. P. L., Mafongonya, D. N. Mugendi, H. M. Murwira, S. M.. Nandwa, P. Nyathi and M. J. Swift., 2003. Soil fertility. Management in Africa: A Regional Perspective. Academy Science Publishers. Nairobi, Kenya. Hudson, N. W., 1989. Soil Conservation. B. T. Batsford limited ...

Linking spatial patterns of soil redistribution traced with 137Cs and soil nutrients in a Mediterranean mountain agroecosystem (NE Spain)

Science.gov (United States)

Quijano, Laura; Gaspar, Leticia; Navas, Ana

2016-04-01

Mediterranean mountain agroecosystems are prone to soil loss mainly due to the accelerated erosion as a consequence of human induced changes from agriculture and grazing practices over the last centuries and the climatic conditions (i.e. irregular and scarce precipitations and drought periods). Soil erosion leads to soil degradation inducing the loss of soil functions. The progressive decline of soil functions thereof soil quality is associated to a decrease of soil productivity and can threat the sustainability of cultivated soils. The use of fallout 137Cs as a soil movement tracer provides useful data to identify areas where loss and gain of 137Cs occurs and that of soil. This study aims to address soil movement and soil nutrient dynamics closely related to the status of soil degradation. A rain-fed cereal field (1.6 ha) representative of Mediterranean mountain agricultural landscapes (42°25'41''N 1°13'8''W) was selected to examine the effects of soil redistribution processes on the spatial variability of soil organic carbon (SOC) and nitrogen (SON) and their relationships with soil properties and topographic characteristics. From the hydrological point of view, the field is isolated due to the effect of landscape features and man-made structures. Climate is continental Mediterranean with an average annual rainfall of 500 mm and soils are Calcisols. The reference inventories of 137Cs and soil nutrients were established from 21 soil samples collected in nearby undisturbed areas under typical Mediterranean vegetation cover. A total of 156 bulk soil samples (30-50 cm depth) and 156 topsoil samples (5 cm) were collected on a 10 m grid. 137Cs and soil nutrients loss and gain areas were identified by comparing the reference inventories with the values of inventories at the sampling points. A new approach to characterize and measure active (ACF) and stable (SCF) carbon fraction contents by using a dry combustion method based on the oxidation temperature of carbon

A pedological investigation of soils associated with rocks of the Ventersdorp supergroup in the western Transvaal

International Nuclear Information System (INIS)

Viljoen, J.N.J.

1987-01-01

The objective of this study was the collecting of information pertaining to soils overlying the rocks of the Ventersdorp Supergroup and an evaluation of the influence of these rocks on soil formation. The area studied was divided into six sub-areas, and one or two sample areas were allocated to each of these sub-areas. In each sample area the soil was studied in catenary sequence. Profile pits were described and samples taken for physical and chemical analyses. The sand fraction was separated into light and heavy mineral fractions. The surface of quartz grains were studied with a petrographic microscope and the aid of an electron microscope. X-ray diffraction was used to determine the mineralogy of the silt and light mineral fractions and a number of selected clay mineral samples. The following characteristics were observed despite the universal presence of wind transported material: epidote, angular quartz grains with undulatory extinction as well as a high percentage silt, coarse and medium sand and fragments of amygdaloids. Aeolian sand in variable amounts is present in all the profiles, and is an important factor affecting the genesis of the soil. Aeolian sand of different ages was possibly distributed and deposited during dry phases in the Quaternary. The influence of aeolian sand on soil formation was evaluated on the basis of mineralogy, grain size distribution, surface characteristics and undulatory extinction of quartz grains as well as soil morphology. The weathering products of different origin were subsequently mixed in situ by bioturbation. The present soil mantle is a product of a number of processes associated with climatic changes in the past, the present climate and mixtures of parent materials of different origin

Knowledge, conservation and sustainable use of soil: agricultural chemistry aspects

Directory of Open Access Journals (Sweden)

Paola Adamo

Full Text Available Soil is an environmental resource and plays ecological, social and economic functions which are fundamental for the life. To guarantee its availability to future generations, soil resource needs sustainable management. The CEC Thematic Strategy for Soil Protection identifies a series of soil degradation processes or threats, which must be identified and combated. These include erosion, decline in organic matter, local and diffuse contamination, sealing, compaction, decline in biodiversity, salinisation, floods and landslides. With respect to management of contamination with potentially toxic elements, an approach based on the identification and quantification of the various forms or, at least, the main pools, in which contaminants occur in soil, is envisaged. The residence time of an element in soil depends, indeed, by the mobility of its predominant forms. Speciation studies provide information on the mobility and biological availability of contaminants, and seek to assess not simply the contamination level, but rather the risk/toxicity of a polluted soil and to predict its reduction after application of remediation techniques. Soil degradation is often associated with a decrease in the organic matter content, mainly caused by soil use change and global warming. Improving the accumulation of organic matter in soil or contrasting its reduction has positive effects on soil and water quality, crop yields, biodiversity and climate leading to a reduction of green-house gas emissions from soil to the atmosphere. In order to obtain a real accumulation of organic matter in soil, it is not sufficient to temporarily increase its total content, but it is necessary to favour the main processes which govern organic matter stabilization. This requires an approach at both molecular and multidisciplinary level. The reforestation of agricultural and highly degraded soils or conservative agronomic practices, such as the use of humified compounds characterized by

Knowledge, conservation and sustainable use of soil: agricultural chemistry aspects

Directory of Open Access Journals (Sweden)

Paola Adamo

2011-02-01

Full Text Available Soil is an environmental resource and plays ecological, social and economic functions which are fundamental for the life. To guarantee its availability to future generations, soil resource needs sustainable management. The CEC Thematic Strategy for Soil Protection identifies a series of soil degradation processes or threats, which must be identified and combated. These include erosion, decline in organic matter, local and diffuse contamination, sealing, compaction, decline in biodiversity, salinisation, floods and landslides. With respect to management of contamination with potentially toxic elements, an approach based on the identification and quantification of the various forms or, at least, the main pools, in which contaminants occur in soil, is envisaged. The residence time of an element in soil depends, indeed, by the mobility of its predominant forms. Speciation studies provide information on the mobility and biological availability of contaminants, and seek to assess not simply the contamination level, but rather the risk/toxicity of a polluted soil and to predict its reduction after application of remediation techniques. Soil degradation is often associated with a decrease in the organic matter content, mainly caused by soil use change and global warming. Improving the accumulation of organic matter in soil or contrasting its reduction has positive effects on soil and water quality, crop yields, biodiversity and climate leading to a reduction of green-house gas emissions from soil to the atmosphere. In order to obtain a real accumulation of organic matter in soil, it is not sufficient to temporarily increase its total content, but it is necessary to favour the main processes which govern organic matter stabilization. This requires an approach at both molecular and multidisciplinary level. The reforestation of agricultural and highly degraded soils or conservative agronomic practices, such as the use of humified compounds characterized by

Monitor Soil Degradation or Triage for Soil Security? An Australian Challenge

Directory of Open Access Journals (Sweden)

Andrea Koch

2015-04-01

Full Text Available The Australian National Soil Research, Development and Extension Strategy identifies soil security as a foundation for the current and future productivity and profitability of Australian agriculture. Current agricultural production is attenuated by soil degradation. Future production is highly dependent on the condition of Australian soils. Soil degradation in Australia is dominated in its areal extent by soil erosion. We reiterate the use of soil erosion as a reliable indicator of soil condition/quality and a practical measure of soil degradation. We describe three key phases of soil degradation since European settlement, and show a clear link between inappropriate agricultural practices and the resultant soil degradation. We demonstrate that modern agricultural practices have had a marked effect on reducing erosion. Current advances in agricultural soil management could lead to further stabilization and slowing of soil degradation in addition to improving productivity. However, policy complacency towards soil degradation, combined with future climate projections of increased rainfall intensity but decreased volumes, warmer temperatures and increased time in drought may once again accelerate soil degradation and susceptibility to erosion and thus limit the ability of agriculture to advance without further improving soil management practices. Monitoring soil degradation may indicate land degradation, but we contend that monitoring will not lead to soil security. We propose the adoption of a triaging approach to soil degradation using the soil security framework, to prioritise treatment plans that engage science and agriculture to develop practices that simultaneously increase productivity and improve soil condition. This will provide a public policy platform for efficient allocation of public and private resources to secure Australia’s soil resource.

Networks of soil biota in a secondary succession gradient: Is it biodiversity or network structure that determines soil function?

Science.gov (United States)

Morriën, Elly; Hannula, Emilia; Snoek, Basten; Hol, Gera; van Veen, Hans; van der Putten, Wim

2017-04-01

experiment we did a field sampling of intact soil cores within the same chronosequence of ex-arable fields. We identified bacteria and fungi by pyrosequencing, while archaea were identified using TRFLP. The protists, micro-fauna, nematodes, enchytraeids and earthworms were extracted and morphologically identified until high taxonomic levels, often species level. In total, around 15 000 species were identified from the soils. We created a Spearman-rank correlation matrix based on abundance data of species which we visualized in a network categorized as recent, mid-term and long-term abandoned fields as an overview of the soil community present. After stable isotope probing using similar methods the soil food web structure was resolved by identifying the microbes using phospholipid markers and identifying soil fauna by morphology into similar groups as for the network analysis, both combined with isotopic measurements. We show that structural changes in the food web topology also leads to functional changes in the soil food web which can act as a driving force during land use change after human disturbance.

Culturable microbial groups and thallium-tolerant fungi in soils with high thallium contamination.

Science.gov (United States)

Sun, Jialong; Zou, Xiao; Ning, Zengping; Sun, Min; Peng, Jingquan; Xiao, Tangfu

2012-12-15

Thallium (Tl) contamination in soil exerts a significant threat to the ecosystem health due to its high toxicity. However, little is known about the effect of Tl on the microbial community in soil. The present study aimed at characterizing the culturable microbial groups in soils which experience for a long time high Tl contamination and elevated Hg and As. The contamination originates from As, Hg and Tl sulfide mineralization and the associated mining activities in the Guizhou Province, Southwest China. Our investigation showed the existence of culturable bacteria, filamentous fungi and actinomyces in long-term Tl-contaminated soils. Some fungal groups grow in the presence of high Tl level up to 1000 mg kg⁻¹. We have isolated and identified nine Tl-tolerant fungal strains based on the morphological traits and ITS analysis. The dominant genera identified were Trichoderma, Penicillium and Paecilomyces. Preliminary data obtained in this study suggested that certain microbes were able to face high Tl pollution in soil and maintain their metabolic activities and resistances. The highly Tl-tolerant fungi that we have isolated are potentially useful in the remediation of Tl-contaminated sites. Copyright © 2012 Elsevier B.V. All rights reserved.

Ecosystem services in grassland associated with biotic and abiotic soil parameters

NARCIS (Netherlands)

Eekeren, van N.J.M.; Boer, de Herman; Hanegraaf, M.C.; Bokhorst, J.; Nierop, D.; Bloem, J.; Schouten, T.; Goede, de R.G.M.; Brussaard, L.

2010-01-01

Biotic soil parameters have so far seldom played a role in practical soil assessment and management of grasslands. However, the ongoing reduction of external inputs in agriculture would imply an increasing reliance on ecosystem self-regulating processes. Since soil biota play an important role in

Methanol oxidation by temperate soils and environmental determinants of associated methylotrophs

Science.gov (United States)

Stacheter, Astrid; Noll, Matthias; Lee, Charles K; Selzer, Mirjam; Glowik, Beate; Ebertsch, Linda; Mertel, Ralf; Schulz, Daria; Lampert, Niclas; Drake, Harold L; Kolb, Steffen

2013-01-01

The role of soil methylotrophs in methanol exchange with the atmosphere has been widely overlooked. Methanol can be derived from plant polymers and be consumed by soil microbial communities. In the current study, methanol-utilizing methylotrophs of 14 aerated soils were examined to resolve their comparative diversities and capacities to utilize ambient concentrations of methanol. Abundances of cultivable methylotrophs ranged from 106–108 gsoilDW−1. Methanol dissimilation was measured based on conversion of supplemented 14C-methanol, and occurred at concentrations down to 0.002 μmol methanol gsoilDW−1. Tested soils exhibited specific affinities to methanol (a0s=0.01 d−1) that were similar to those of other environments suggesting that methylotrophs with similar affinities were present. Two deep-branching alphaproteobacterial genotypes of mch responded to the addition of ambient concentrations of methanol (⩽0.6 μmol methanol gsoilDW−1) in one of these soils. Methylotroph community structures were assessed by amplicon pyrosequencing of genes of mono carbon metabolism (mxaF, mch and fae). Alphaproteobacteria-affiliated genotypes were predominant in all investigated soils, and the occurrence of novel genotypes indicated a hitherto unveiled diversity of methylotrophs. Correlations between vegetation type, soil pH and methylotroph community structure suggested that plant–methylotroph interactions were determinative for soil methylotrophs. PMID:23254514

An investigation of inorganic antimony species and antimony associated with soil humic acid molar mass fractions in contaminated soils

International Nuclear Information System (INIS)

Steely, Sarah; Amarasiriwardena, Dulasiri; Xing Baoshan

2007-01-01

The presence of antimony compounds is often suspected in the soil of apple orchards contaminated with lead arsenate pesticide and in the soil of shooting ranges. Nitric acid (1 M) extractable Sb from the shooting range (8300 μg kg -1 ) and the apple orchard (69 μg kg -1 ) had considerably higher surface Sb levels than the control site ( -1 ), and Sb was confined to the top ∼30 cm soil layer. Sb(V) was the principal species in the shooting range and the apple orchard surface soils. Size exclusion chromatography-inductively coupled plasma-mass spectrometry (SEC-ICP-MS) analysis of humic acids isolated from the two contaminated soils demonstrated that Sb has complexed to humic acid molar mass fractions. The results also indicate that humic acids have the ability to arrest the mobility of Sb through soils and would be beneficial in converting Sb(III) to a less toxic species, Sb(V), in contaminated areas. - The soil surface and depth distribution Sb(V) and Sb(III) species in a contaminated apple orchard and a shooting range, and the effect soil humic acids on inorganic antimony species is reported

Twelve type 2 diabetes susceptibility loci identified through large-scale association analysis

DEFF Research Database (Denmark)

Voight, Benjamin F; Scott, Laura J; Steinthorsdottir, Valgerdur

2010-01-01

By combining genome-wide association data from 8,130 individuals with type 2 diabetes (T2D) and 38,987 controls of European descent and following up previously unidentified meta-analysis signals in a further 34,412 cases and 59,925 controls, we identified 12 new T2D association signals...

Large-scale genotyping identifies 41 new loci associated with breast cancer risk

DEFF Research Database (Denmark)

Michailidou, Kyriaki; Hall, Per; Gonzalez-Neira, Anna

2013-01-01

Breast cancer is the most common cancer among women. Common variants at 27 loci have been identified as associated with susceptibility to breast cancer, and these account for ∼9% of the familial risk of the disease. We report here a meta-analysis of 9 genome-wide association studies, including 10...

Large-scale genotyping identifies 41 new loci associated with breast cancer risk

NARCIS (Netherlands)

Michailidou, Kyriaki; Hall, Per; Gonzalez-Neira, Anna; Ghoussaini, Maya; Dennis, Joe; Milne, Roger L.; Schmidt, Marjanka K.; Chang-Claude, Jenny; Bojesen, Stig E.; Bolla, Manjeet K.; Wang, Qin; Dicks, Ed; Lee, Andrew; Turnbull, Clare; Rahman, Nazneen; Fletcher, Olivia; Peto, Julian; Gibson, Lorna; dos Santos Silva, Isabel; Nevanlinna, Heli; Muranen, Taru A.; Aittomäki, Kristiina; Blomqvist, Carl; Czene, Kamila; Irwanto, Astrid; Liu, Jianjun; Waisfisz, Quinten; Meijers-Heijboer, Hanne; Adank, Muriel; van der Luijt, Rob B.; Hein, Rebecca; Dahmen, Norbert; Beckman, Lars; Meindl, Alfons; Schmutzler, Rita K.; Müller-Myhsok, Bertram; Lichtner, Peter; Hopper, John L.; Southey, Melissa C.; Makalic, Enes; Schmidt, Daniel F.; Uitterlinden, Andre G.; Hofman, Albert; Hunter, David J.; Chanock, Stephen J.; Vincent, Daniel; Bacot, François; Tessier, Daniel C.; Canisius, Sander; Wessels, Lodewyk F. A.; Haiman, Christopher A.; Shah, Mitul; Luben, Robert; Brown, Judith; Luccarini, Craig; Schoof, Nils; Humphreys, Keith; Li, Jingmei; Nordestgaard, Børge G.; Nielsen, Sune F.; Flyger, Henrik; Couch, Fergus J.; Wang, Xianshu; Vachon, Celine; Stevens, Kristen N.; Lambrechts, Diether; Moisse, Matthieu; Paridaens, Robert; Christiaens, Marie-Rose; Rudolph, Anja; Nickels, Stefan; Flesch-Janys, Dieter; Johnson, Nichola; Aitken, Zoe; Aaltonen, Kirsimari; Heikkinen, Tuomas; Broeks, Annegien; van 't Veer, Laura J.; van der Schoot, C. Ellen; Guénel, Pascal; Truong, Thérèse; Laurent-Puig, Pierre; Menegaux, Florence; Marme, Frederik; Schneeweiss, Andreas; Sohn, Christof; Burwinkel, Barbara; Zamora, M. Pilar; Perez, Jose Ignacio Arias; Pita, Guillermo; Alonso, M. Rosario; Cox, Angela; Brock, Ian W.; Cross, Simon S.; Reed, Malcolm W. R.; Sawyer, Elinor J.; Tomlinson, Ian; Kerin, Michael J.; Miller, Nicola; Henderson, Brian E.; Schumacher, Fredrick; Le Marchand, Loic; Andrulis, Irene L.; Knight, Julia A.; Glendon, Gord; Mulligan, Anna Marie; Lindblom, Annika; Margolin, Sara; Hooning, Maartje J.; Hollestelle, Antoinette; van den Ouweland, Ans M. W.; Jager, Agnes; Bui, Quang M.; Stone, Jennifer; Dite, Gillian S.; Apicella, Carmel; Tsimiklis, Helen; Giles, Graham G.; Severi, Gianluca; Baglietto, Laura; Fasching, Peter A.; Haeberle, Lothar; Ekici, Arif B.; Beckmann, Matthias W.; Brenner, Hermann; Müller, Heiko; Arndt, Volker; Stegmaier, Christa; Swerdlow, Anthony; Ashworth, Alan; Orr, Nick; Jones, Michael; Figueroa, Jonine; Lissowska, Jolanta; Brinton, Louise; Goldberg, Mark S.; Labrèche, France; Dumont, Martine; Winqvist, Robert; Pylkäs, Katri; Jukkola-Vuorinen, Arja; Grip, Mervi; Brauch, Hiltrud; Hamann, Ute; Brüning, Thomas; Radice, Paolo; Peterlongo, Paolo; Manoukian, Siranoush; Bonanni, Bernardo; Devilee, Peter; Tollenaar, Rob A. E. M.; Seynaeve, Caroline; van Asperen, Christi J.; Jakubowska, Anna; Lubinski, Jan; Jaworska, Katarzyna; Durda, Katarzyna; Mannermaa, Arto; Kataja, Vesa; Kosma, Veli-Matti; Hartikainen, Jaana M.; Bogdanova, Natalia V.; Antonenkova, Natalia N.; Dörk, Thilo; Kristensen, Vessela N.; Anton-Culver, Hoda; Slager, Susan; Toland, Amanda E.; Edge, Stephen; Fostira, Florentia; Kang, Daehee; Yoo, Keun-Young; Noh, Dong-Young; Matsuo, Keitaro; Ito, Hidemi; Iwata, Hiroji; Sueta, Aiko; Wu, Anna H.; Tseng, Chiu-Chen; van den Berg, David; Stram, Daniel O.; Shu, Xiao-Ou; Lu, Wei; Gao, Yu-Tang; Cai, Hui; teo, Soo Hwang; Yip, Cheng Har; Phuah, Sze Yee; Cornes, Belinda K.; Hartman, Mikael; Miao, Hui; Lim, Wei Yen; Sng, Jen-Hwei; Muir, Kenneth; Lophatananon, Artitaya; Stewart-Brown, Sarah; Siriwanarangsan, Pornthep; Shen, Chen-Yang; Hsiung, Chia-Ni; Wu, Pei-Ei; Ding, Shian-Ling; Sangrajrang, Suleeporn; Gaborieau, Valerie; Brennan, Paul; McKay, James; Blot, William J.; Signorello, Lisa B.; Cai, Qiuyin; Zheng, Wei; Deming-Halverson, Sandra; Shrubsole, Martha; Long, Jirong; Simard, Jacques; Garcia-Closas, Montse; Pharoah, Paul D. P.; Chenevix-Trench, Georgia; Dunning, Alison M.; Benitez, Javier; Easton, Douglas F.

2013-01-01

Breast cancer is the most common cancer among women. Common variants at 27 loci have been identified as associated with susceptibility to breast cancer, and these account for ∼9% of the familial risk of the disease. We report here a meta-analysis of 9 genome-wide association studies, including

Standard test method for measuring pH of soil for use in corrosion testing

CERN Document Server

American Society for Testing and Materials. Philadelphia

1995-01-01

1.1 This test method covers a procedure for determining the pH of a soil in corrosion testing. The principle use of the test is to supplement soil resistivity measurements and thereby identify conditions under which the corrosion of metals in soil may be accentuated (see G 57 - 78 (1984)). 1.2 This standard does not purport to address all of the safety concerns, if any, associated with its use. It is the responsibility of the user of this standard to establish appropriate safety and health practices and determine the applicability of regulatory limitations prior to use.

Soil Conditions Rather Than Long-Term Exposure to Elevated CO2 Affect Soil Microbial Communities Associated with N-Cycling

Directory of Open Access Journals (Sweden)

Kristof Brenzinger

2017-10-01

Full Text Available Continuously rising atmospheric CO2 concentrations may lead to an increased transfer of organic C from plants to the soil through rhizodeposition and may affect the interaction between the C- and N-cycle. For instance, fumigation of soils with elevated CO2 (eCO2 concentrations (20% higher compared to current atmospheric concentrations at the Giessen Free-Air Carbon Dioxide Enrichment (GiFACE sites resulted in a more than 2-fold increase of long-term N2O emissions and an increase in dissimilatory reduction of nitrate compared to ambient CO2 (aCO2. We hypothesized that the observed differences in soil functioning were based on differences in the abundance and composition of microbial communities in general and especially of those which are responsible for N-transformations in soil. We also expected eCO2 effects on soil parameters, such as on nitrate as previously reported. To explore the impact of long-term eCO2 on soil microbial communities, we applied a molecular approach (qPCR, T-RFLP, and 454 pyrosequencing. Microbial groups were analyzed in soil of three sets of two FACE plots (three replicate samples from each plot, which were fumigated with eCO2 and aCO2, respectively. N-fixers, denitrifiers, archaeal and bacterial ammonia oxidizers, and dissimilatory nitrate reducers producing ammonia were targeted by analysis of functional marker genes, and the overall archaeal community by 16S rRNA genes. Remarkably, soil parameters as well as the abundance and composition of microbial communities in the top soil under eCO2 differed only slightly from soil under aCO2. Wherever differences in microbial community abundance and composition were detected, they were not linked to CO2 level but rather determined by differences in soil parameters (e.g., soil moisture content due to the localization of the GiFACE sets in the experimental field. We concluded that +20% eCO2 had little to no effect on the overall microbial community involved in N-cycling in the

Soil Conditions Rather Than Long-Term Exposure to Elevated CO2 Affect Soil Microbial Communities Associated with N-Cycling.

Science.gov (United States)

Brenzinger, Kristof; Kujala, Katharina; Horn, Marcus A; Moser, Gerald; Guillet, Cécile; Kammann, Claudia; Müller, Christoph; Braker, Gesche

2017-01-01

Continuously rising atmospheric CO 2 concentrations may lead to an increased transfer of organic C from plants to the soil through rhizodeposition and may affect the interaction between the C- and N-cycle. For instance, fumigation of soils with elevated CO 2 ( e CO 2 ) concentrations (20% higher compared to current atmospheric concentrations) at the Giessen Free-Air Carbon Dioxide Enrichment (GiFACE) sites resulted in a more than 2-fold increase of long-term N 2 O emissions and an increase in dissimilatory reduction of nitrate compared to ambient CO 2 ( a CO 2 ). We hypothesized that the observed differences in soil functioning were based on differences in the abundance and composition of microbial communities in general and especially of those which are responsible for N-transformations in soil. We also expected e CO 2 effects on soil parameters, such as on nitrate as previously reported. To explore the impact of long-term e CO 2 on soil microbial communities, we applied a molecular approach (qPCR, T-RFLP, and 454 pyrosequencing). Microbial groups were analyzed in soil of three sets of two FACE plots (three replicate samples from each plot), which were fumigated with e CO 2 and a CO 2 , respectively. N-fixers, denitrifiers, archaeal and bacterial ammonia oxidizers, and dissimilatory nitrate reducers producing ammonia were targeted by analysis of functional marker genes, and the overall archaeal community by 16S rRNA genes. Remarkably, soil parameters as well as the abundance and composition of microbial communities in the top soil under e CO 2 differed only slightly from soil under a CO 2 . Wherever differences in microbial community abundance and composition were detected, they were not linked to CO 2 level but rather determined by differences in soil parameters (e.g., soil moisture content) due to the localization of the GiFACE sets in the experimental field. We concluded that +20% e CO 2 had little to no effect on the overall microbial community involved in N

The intake of lead and associated metals by sheep grazing mining-contaminated floodplain pastures in mid-Wales, UK: I. Soil ingestion, soil-metal partitioning and potential availability to pasture herbage and livestock

International Nuclear Information System (INIS)

Smith, K.M.; Abrahams, P.W.; Dagleish, M.P.; Steigmajer, J.

2009-01-01

This paper first evaluates the relative importance of the soil-plant-animal and soil-animal pathways of Zn, Cu and (especially) Pb investigated over a 15-month study period at 12 floodplain sites located within and downstream of the mineralised and historic mining area of mid-Wales, and secondly considers the implications of a sequential extraction procedure (SEP) undertaken on soils of varying particle size sampled from the study locations. Generally, very good agreement was found between the chemical partitioning of the three metals for each of the physical soil fractions subjected to the SEP. The availability of Pb to pasture vegetation, especially at the contaminated sites, is indicated with its associations with the more soluble (i.e. exchangeable and Fe/Mn oxide) soil phases, yet soil and/or plant barriers effectively restrict above-ground herbage concentrations of this metal. Consequently, with sheep ingesting soil at rates varying according to season from 0.1% to 44% or more of dry matter intake, the soil-animal pathway accounts for the majority of Pb consumption through most of the year, and at moderately and highly contaminated sites significant quantities of relatively soluble soil-Pb can be ingested at rates exceeding safety threshold limits.

Two-dimensional NMR spectroscopy strongly enhances soil organic matter composition analysis

Science.gov (United States)

Soucemarianadin, Laure; Erhagen, Björn; Öquist, Mats; Nilsson, Mats; Hedenström, Mattias; Schleucher, Jürgen

2016-04-01

Soil organic matter (SOM) is the largest terrestrial carbon pool and strongly affects soil properties. With climate change, understanding SOM processes and turnover and how they could be affected by increasing temperatures becomes critical. This is particularly key for organic soils as they represent a huge carbon pool in very sensitive ecosystems, like boreal ecosystems and peatlands. Nevertheless, characterization of SOM molecular composition, which is essential to elucidate soil carbon processes, is not easily achieved, and further advancements in that area are greatly needed. Solid-state one-dimensional (1D) 13C nuclear magnetic resonance (NMR) spectroscopy is often used to characterize its molecular composition, but only provides data on a few major functional groups, which regroup many different molecular fragments. For instance, in the carbohydrates region, signals of all monosaccharides present in many different polymers overlap. This overlap thwarts attempts to identify molecular moieties, resulting in insufficient information to characterize SOM composition. Here we show that two-dimensional (2D) liquid-state 1H-13C NMR spectra provided much richer data on the composition of boreal plant litter and organic surface soil. The 2D spectra indeed resolved overlaps observed in 1D 13C spectra and displayed signals from hundreds of identifiable molecular groups. For example, in the aromatics region, signals from individual lignin units could be recognized. It was hence possible to follow the fate of specific structural moieties in soils. We observed differences between litter and soil samples, and were able to relate them to the decomposition of identifiable moieties. Sample preparation and data acquisition were both simple and fast. Further, using multivariate data analysis, we aimed at linking the detailed chemical fingerprints of SOM to turnover rates in a soil incubation experiment. With the multivariate models, we were able to identify specific molecular

Testing nickel tolerance of Sorghastrum nutans and its associated soil microbial community from serpentine and prairie soils

International Nuclear Information System (INIS)

Doherty, Jennifer H.; Ji Baoming; Casper, Brenda B.

2008-01-01

Ecotypes of Sorghastrum nutans from a naturally metalliferous serpentine grassland and the tallgrass prairie were assessed for Ni tolerance and their utility in remediation of Ni-polluted soils. Plants were inoculated with serpentine arbuscular mycorrhizal (AM) root inoculum or whole soil microbial communities, originating from either prairie or serpentine, to test their effects on plant performance in the presence of Ni. Serpentine plants had marginally higher Ni tolerance as indicated by higher survival. Ni reduced plant biomass and AM root colonization for both ecotypes. The serpentine AM fungi and whole microbial community treatments decreased plant biomass relative to uninoculated plants, while the prairie microbial community had no effect. Differences in how the soil communities affect plant performance were not reflected in patterns of root colonization by AM fungi. Thus, serpentine plants may be suited for reclamation of Ni-polluted soils, but AM fungi that occur on serpentine do not improve Ni tolerance. - Ni tolerance of Sorghastrum nutans differs slightly between serpentine and prairie populations and is negatively affected by serpentine soil and root inoculation

Effects of long-term continuous cropping on soil nematode community and soil condition associated with replant problem in strawberry habitat

Science.gov (United States)

Li, Xingyue; Lewis, Edwin E.; Liu, Qizhi; Li, Heqin; Bai, Chunqi; Wang, Yuzhu

2016-08-01

Continuous cropping changes soil physiochemical parameters, enzymes and microorganism communities, causing “replant problem” in strawberry cultivation. We hypothesized that soil nematode community would reflect the changes in soil conditions caused by long-term continuous cropping, in ways that are consistent and predictable. To test this hypothesis, we studied the soil nematode communities and several soil parameters, including the concentration of soil phenolic acids, organic matter and nitrogen levels, in strawberry greenhouse under continuous-cropping for five different durations. Soil pH significantly decreased, and four phenolic acids, i.e., p-hydroxybenzoic acid, ferulic acid, cinnamic acid and p-coumaric acid, accumulated with time under continuous cropping. The four phenolic acids were highly toxic to Acrobeloides spp., the eudominant genus in non-continuous cropping, causing it to reduce to a resident genus after seven-years of continuous cropping. Decreased nematode diversity indicated loss of ecosystem stability and sustainability because of continuous-cropping practice. Moreover, the dominant decomposition pathway was altered from bacterial to fungal under continuous cropping. Our results suggest that along with the continuous-cropping time in strawberry habitat, the soil food web is disturbed, and the available plant nutrition as well as the general health of the soil deteriorates; these changes can be indicated by soil nematode community.

Variation in soil macro-fauna diversity in seven humus orders of a Parrotio-Carpinetum forest association on Chromic Cambisols of Shast-klateh area in Iran

Science.gov (United States)

Izadi, M.; Habashi, H.; Waez-Mousavi, S. M.

2017-03-01

Soil biodiversity includes organisms which spend a part or all of their life cycle on or in the soil. Among soil-dwelling animals, macro-fauna as an important group of animals have important effects on the dynamics of soil organic matter and litter decomposition process. The humus forms interact with the climatic conditions, flora, as well as soil fauna, and microbial activity. In new humus form classifications, soil organisms play an important role in separation of humus horizons from one another. The subject of this study was to determine the diversity of macro fauna for different humus forms. We determined humus forms using morphological classification, and then 69 random samples were taken from plots of 100 cm2 in area, and soil macro-fauna species were collected by hand sorting method. Two classes of humus forms, including Mull (with three humus orders, namely Dysmull, Oligomull, and Mesomull,) and Amphi (with four humus orders, namely Leptoamphi, Eumacroamphi, Eumesoamphi, and Pachyamphi) were identified. A number of 13 macro-fauna orders were identified using identification key. Among the humus orders, Shannon diversity, Simpson evenness and Margalef richness indices were the highest in Pachyamphi order. Arthropod diversity in Pachyamphi humus order was higher than those of Mull. These results showed that diversity of soil macrofauna increase by increasing the thickness of the organic horizons (OL, OF, OH), especially OH horizon.

Twelve type 2 diabetes susceptibility loci identified through large-scale association analysis

NARCIS (Netherlands)

B.F. Voight (Benjamin); L.J. Scott (Laura); V. Steinthorsdottir (Valgerdur); A.D. Morris (Andrew); C. Dina (Christian); R.P. Welch (Ryan); E. Zeggini (Eleftheria); C. Huth (Cornelia); Y.S. Aulchenko (Yurii); G. Thorleifsson (Gudmar); L.J. McCulloch (Laura); T. Ferreira (Teresa); H. Grallert (Harald); N. Amin (Najaf); G. Wu (Guanming); C.J. Willer (Cristen); S. Raychaudhuri (Soumya); S.A. McCarroll (Steven); C. Langenberg (Claudia); O.M. Hofmann (Oliver); J. Dupuis (Josée); L. Qi (Lu); A.V. Segrè (Ayellet); M. van Hoek (Mandy); P. Navarro (Pau); K.G. Ardlie (Kristin); B. Balkau (Beverley); R. Benediktsson (Rafn); A.J. Bennett (Amanda); R. Blagieva (Roza); E.A. Boerwinkle (Eric); L.L. Bonnycastle (Lori); K.B. Boström (Kristina Bengtsson); B. Bravenboer (Bert); S. Bumpstead (Suzannah); N.P. Burtt (Noël); G. Charpentier (Guillaume); P.S. Chines (Peter); M. Cornelis (Marilyn); D.J. Couper (David); G. Crawford (Gabe); A.S.F. Doney (Alex); K.S. Elliott (Katherine); M.R. Erdos (Michael); C.S. Fox (Caroline); C.S. Franklin (Christopher); M. Ganser (Martha); C. Gieger (Christian); N. Grarup (Niels); T. Green (Todd); S. Griffin (Simon); C.J. Groves (Christopher); C. Guiducci (Candace); S. Hadjadj (Samy); N. Hassanali (Neelam); C. Herder (Christian); B. Isomaa (Bo); A.U. Jackson (Anne); P.R.V. Johnson (Paul); T. Jørgensen (Torben); W.H.L. Kao (Wen); N. Klopp (Norman); A. Kong (Augustine); P. Kraft (Peter); J. Kuusisto (Johanna); T. Lauritzen (Torsten); M. Li (Man); A. Lieverse (Aloysius); C.M. Lindgren (Cecilia); V. Lyssenko (Valeriya); M. Marre (Michel); T. Meitinger (Thomas); K. Midthjell (Kristian); M.A. Morken (Mario); N. Narisu (Narisu); P. Nilsson (Peter); K.R. Owen (Katharine); F. Payne (Felicity); J.R.B. Perry (John); A.K. Petersen; C. Platou (Carl); C. Proença (Christine); I. Prokopenko (Inga); W. Rathmann (Wolfgang); N.W. Rayner (Nigel William); N.R. Robertson (Neil); G. Rocheleau (Ghislain); M. Roden (Michael); M.J. Sampson (Michael); R. Saxena (Richa); B.M. Shields (Beverley); P. Shrader (Peter); G. Sigurdsson (Gunnar); T. Sparsø (Thomas); K. Strassburger (Klaus); H.M. Stringham (Heather); Q. Sun (Qi); A.J. Swift (Amy); B. Thorand (Barbara); J. Tichet (Jean); T. Tuomi (Tiinamaija); R.M. van Dam (Rob); T.W. van Haeften (Timon); T.W. van Herpt (Thijs); J.V. van Vliet-Ostaptchouk (Jana); G.B. Walters (Bragi); M.N. Weedon (Michael); C. Wijmenga (Cisca); J.C.M. Witteman (Jacqueline); R.N. Bergman (Richard); S. Cauchi (Stephane); F.S. Collins (Francis); A.L. Gloyn (Anna); U. Gyllensten (Ulf); T. Hansen (Torben); W.A. Hide (Winston); G.A. Hitman (Graham); A. Hofman (Albert); D. Hunter (David); K. Hveem (Kristian); M. Laakso (Markku); K.L. Mohlke (Karen); C.N.A. Palmer (Colin); P.P. Pramstaller (Peter Paul); I. Rudan (Igor); E.J.G. Sijbrands (Eric); L.D. Stein (Lincoln); J. Tuomilehto (Jaakko); A.G. Uitterlinden (André); M. Walker (Mark); N.J. Wareham (Nick); G.R. Abecasis (Gonçalo); B.O. Boehm (Bernhard); H. Campbell (Harry); M.J. Daly (Mark); A.T. Hattersley (Andrew); F.B. Hu (Frank); J.B. Meigs (James); J.S. Pankow (James); O. Pedersen (Oluf); H.E. Wichmann (Erich); I.E. Barroso (Inês); J.C. Florez (Jose); T.M. Frayling (Timothy); L. Groop (Leif); R. Sladek (Rob); U. Thorsteinsdottir (Unnur); J.F. Wilson (James); T. Illig (Thomas); P. Froguel (Philippe); P. Tikka-Kleemola (Päivi); J-A. Zwart (John-Anker); D. Altshuler (David); M. Boehnke (Michael); M.I. McCarthy (Mark); R.M. Watanabe (Richard)

2010-01-01

textabstractBy combining genome-wide association data from 8,130 individuals with type 2 diabetes (T2D) and 38,987 controls of European descent and following up previously unidentified meta-analysis signals in a further 34,412 cases and 59,925 controls, we identified 12 new T2D association signals

Variability of δ15N in soil and plants at a New Zealand hill country site: correlations with soil chemistry and nutrient inputs

International Nuclear Information System (INIS)

Hawke, D.J.

2000-01-01

This study investigated 15 N enrichment and nutrient cycling in hill country used for semi-extensive pastoral agriculture, at a site where pre-European seabird breeding occurred. Soil (>15 cm) and plant samples were taken from 18 ridgeline and sideslope transects. Three stock camps (locations which grazing animals frequent) were identified within the study area, two on the ridgeline and one on the sideslope. Soil 15 N enrichment was greatest at stock camps, and lowest where stock input was minimal. Soil natural abundance 15 N (815N) was therefore an index of stock nutrient inputs. Soil δ 15 N increased with decreasing C:N ratio, consistent with N loss through volatilisation and/or nitrate leaching from net mineralisation. Plant δ 15 N from stock camps was lower than its associated soil, implying that 15 N enrichment of plant-available N was lower than that of total soil N. However, the correlation between plant δ 15 N and soil δ 15 N varied between stock camps, indicating differences in N cycling. Olsen P was higher at stock camps, although again differences were found between stock camps. Total P and N were correlated neither with stock camps nor topography, but were higher than expected from parent material concentrations and literature results, respectively. It is postulated that significant contributions of both elements from former seabird breeding remain in the soil. Copyright (2000) CSIRO Publishing

Operational strategy for soil concentration predictions of strontium/yttrium-90 and cesium-137 in surface soil at the West Valley Demonstration Project site

International Nuclear Information System (INIS)

Myers, J.A.

1995-01-01

There are difficulties associated with the assessment of the interpretation of field measurements, determination of guideline protocols and control and disposal of low level radioactive contaminated soil in the environmental health physics field. Questions are raised among scientists and in public forums concerning the necessity and high costs of large area soil remediation versus the risks of low-dose radiation health effects. As a result, accurate soil activity assessments become imperative in decontamination situations. The West Valley Demonstration Project (WVDP), a US Department of Energy facility located in West Valley, New York is managed and operated by West Valley Nuclear Services Co., Inc. (WVNS). WVNS has identified contaminated on-site soil areas with a mixed variety of radionuclides (primarily fission product). Through the use of data obtained from a previous project performed during the summer of 1994 entitled ''Field Survey Correlation and Instrumentation Response for an In Situ Soil Measurement Program'' (Myers), the WVDP offers a unique research opportunity to investigate the possibility of soil concentration predictions based on exposure or count rate responses returned from a survey detector probe. In this study, correlations are developed between laboratory measured soil beta activity and survey probe response for the purposes of determining the optimal detector for field use and using these correlations to establish predictability of soil activity levels

Covariance Association Test (CVAT) Identifies Genetic Markers Associated with Schizophrenia in Functionally Associated Biological Processes.

Science.gov (United States)

Rohde, Palle Duun; Demontis, Ditte; Cuyabano, Beatriz Castro Dias; Børglum, Anders D; Sørensen, Peter

2016-08-01

Schizophrenia is a psychiatric disorder with large personal and social costs, and understanding the genetic etiology is important. Such knowledge can be obtained by testing the association between a disease phenotype and individual genetic markers; however, such single-marker methods have limited power to detect genetic markers with small effects. Instead, aggregating genetic markers based on biological information might increase the power to identify sets of genetic markers of etiological significance. Several set test methods have been proposed: Here we propose a new set test derived from genomic best linear unbiased prediction (GBLUP), the covariance association test (CVAT). We compared the performance of CVAT to other commonly used set tests. The comparison was conducted using a simulated study population having the same genetic parameters as for schizophrenia. We found that CVAT was among the top performers. When extending CVAT to utilize a mixture of SNP effects, we found an increase in power to detect the causal sets. Applying the methods to a Danish schizophrenia case-control data set, we found genomic evidence for association of schizophrenia with vitamin A metabolism and immunological responses, which previously have been implicated with schizophrenia based on experimental and observational studies. Copyright © 2016 by the Genetics Society of America.

A genome-wide association scan in pig identifies novel regions associated with feed efficiency trait

DEFF Research Database (Denmark)

Sahana, Goutam; Kadlecová, Veronika; Hornshøj, Henrik

2013-01-01

Feed conversion ratio (FCR) is an economically important trait in pigs and feed accounts for a significant proportion of the costs involved in pig production. In this study we used a high density SNP chip panel, Porcine SNP60 BeadChip, to identify association between FCR and SNP markers and to st...

Soil nutritional status and biogeography influence rhizosphere microbial communities associated with the invasive tree Acacia dealbata.

Science.gov (United States)

Kamutando, Casper N; Vikram, Surendra; Kamgan-Nkuekam, Gilbert; Makhalanyane, Thulani P; Greve, Michelle; Roux, Johannes J Le; Richardson, David M; Cowan, Don; Valverde, Angel

2017-07-26

Invasiveness and the impacts of introduced plants are known to be mediated by plant-microbe interactions. Yet, the microbial communities associated with invasive plants are generally poorly understood. Here we report on the first comprehensive investigation of the bacterial and fungal communities inhabiting the rhizosphere and the surrounding bulk soil of a widespread invasive tree, Acacia dealbata. Amplicon sequencing data indicated that rhizospheric microbial communities differed significantly in structure and composition from those of the bulk soil. Two bacterial (Alphaproteobacteria and Gammaproteobacteria) and two fungal (Pezizomycetes and Agaricomycetes) classes were enriched in the rhizosphere compared with bulk soils. Changes in nutritional status, possibly induced by A. dealbata, primarily shaped rhizosphere soil communities. Despite a high degree of geographic variability in the diversity and composition of microbial communities, invasive A. dealbata populations shared a core of bacterial and fungal taxa, some of which are known to be involved in N and P cycling, while others are regarded as plant pathogens. Shotgun metagenomic analysis also showed that several functional genes related to plant growth promotion were overrepresented in the rhizospheres of A. dealbata. Overall, results suggest that rhizosphere microbes may contribute to the widespread success of this invader in novel environments.

Remediation of soils combining soil vapor extraction and bioremediation: benzene.

Science.gov (United States)

Soares, António Alves; Albergaria, José Tomás; Domingues, Valentina Fernandes; Alvim-Ferraz, Maria da Conceição M; Delerue-Matos, Cristina

2010-08-01

This work reports the study of the combination of soil vapor extraction (SVE) with bioremediation (BR) to remediate soils contaminated with benzene. Soils contaminated with benzene with different water and natural organic matter contents were studied. The main goals were: (i) evaluate the performance of SVE regarding the remediation time and the process efficiency; (ii) study the combination of both technologies in order to identify the best option capable to achieve the legal clean up goals; and (iii) evaluate the influence of soil water content (SWC) and natural organic matter (NOM) on SVE and BR. The remediation experiments performed in soils contaminated with benzene allowed concluding that: (i) SVE presented (a) efficiencies above 92% for sandy soils and above 78% for humic soils; (b) and remediation times from 2 to 45 h, depending on the soil; (ii) BR showed to be an efficient technology to complement SVE; (iii) (a) SWC showed minimum impact on SVE when high airflow rates were used and led to higher remediation times for lower flow rates; (b) NOM as source of microorganisms and nutrients enhanced BR but hindered the SVE due the limitation on the mass transfer of benzene from the soil to the gas phase. (c) 2010 Elsevier Ltd. All rights reserved.

Antibiotic Resistance in Animal-waste-impacted Farm Soil: From Molecular Mechanisms to Microbial Evolution and Ecology

Science.gov (United States)

You, Y.; Ward, M. J.; Hilpert, M.

2012-12-01

-waste-exposed soil isolate, Bhargavaea cecembensis DMV42A, cloning and sequencing identified a new TcR gene, tet(45), adjacent to putative arsenic resistance genes. Tet45 was shown to function as an efflux pump in Escherichia coli. A CTn3-like mobile genetic element (MGE) harboring tet(M) was also identified in DMV42A. After filter matings with DMV42A, both tet(45) and a CTn3 gene were identified in newly TcR E. coli transconjugants, indicating that both genes are transmissible. In the waste-impacted soil, tet(M) and CTn3-like elements (as well as other Tn916-family MGEs) were found by qPCR to be more abundant than tet(45). By the end of the 2-year sampling period, these tet genes and MGEs were still present at similar levels. None of them were found at the marginally affected farm site, nor at any state forest site. While none of the ARGs/MGEs identified in this study were shown to be present in the chicken waste generated on the farm (no chicken waste was analyzed), several characteristics of the ARGs (including their prevalence, persistence, transmissibility, and association with MGEs) indicate that they are perhaps not associated with the natural soil resistome, but are instead part of the potentially worrisome expanded resistome associated with agricultural practices at concentrated animal feeding operations.

Soil microbial communities as suitable bioindicators of trace metal pollution in agricultural volcanic soils

Science.gov (United States)

Parelho, Carolina; dos Santos Rodrigues, Armindo; do Carmo Barreto, Maria; Gonçalo Ferreira, Nuno; Garcia, Patrícia

2015-04-01

Summary: The biological, chemical and physical properties of soil confer unique characteristics that enhance or influence its overall biodiversity. The adaptive character of soil microbial communities (SMCs) to metal pollution allows discriminating soil health, since changes in microbial populations and activities may function as excellent indicators of soil pollutants. Volcanic soils are unique naturally fertile resources, extensively used for agricultural purposes and with particular physicochemical properties that may result in accumulation of toxic substances, such as trace metals (TM). In our previous works, we identified priority TM affecting agricultural Andosols under different agricultural land uses. Within this particular context, the objectives of this study were to (i) assess the effect of soil TM pollution in different agricultural systems (conventional, traditional and organic) on the following soil properties: microbial biomass carbon, basal soil respiration, metabolic quotient, enzymatic activities (β-glucosidase, acid phosphatase and dehydrogenase) and RNA to DNA ratio; and (ii) evaluate the impact of TM in the soil ecosystem using the integrated biomarker response (IBR) based on a set of biochemical responses of SMCs. This multi-biomarker approach will support the development of the "Trace Metal Footprint" for different agricultural land uses in volcanic soils. Methods: The study was conducted in S. Miguel Island (Azores, Portugal). Microbial biomass carbon was measured by chloroform-fumigation-incubation-assay (Vance et al., 1987). Basal respiration was determined by the Jenkinson & Powlson (1976) technique. Metabolic quotient was calculated as the ratio of basal respiration to microbial biomass C (Sparkling & West, 1988). The enzymatic activities of β-glucosidase and acid phosphatase were determined by the Dick et al. (1996) method and dehydrogenase activity by the Rossel et al. (1997) method. The RNA and DNA were co-extracted from the same

Soil fauna: key to new carbon models

Science.gov (United States)

Filser, Juliane; Faber, Jack H.; Tiunov, Alexei V.; Brussaard, Lijbert; Frouz, Jan; De Deyn, Gerlinde; Uvarov, Alexei V.; Berg, Matty P.; Lavelle, Patrick; Loreau, Michel; Wall, Diana H.; Querner, Pascal; Eijsackers, Herman; José Jiménez, Juan

2016-11-01

Soil organic matter (SOM) is key to maintaining soil fertility, mitigating climate change, combatting land degradation, and conserving above- and below-ground biodiversity and associated soil processes and ecosystem services. In order to derive management options for maintaining these essential services provided by soils, policy makers depend on robust, predictive models identifying key drivers of SOM dynamics. Existing SOM models and suggested guidelines for future SOM modelling are defined mostly in terms of plant residue quality and input and microbial decomposition, overlooking the significant regulation provided by soil fauna. The fauna controls almost any aspect of organic matter turnover, foremost by regulating the activity and functional composition of soil microorganisms and their physical-chemical connectivity with soil organic matter. We demonstrate a very strong impact of soil animals on carbon turnover, increasing or decreasing it by several dozen percent, sometimes even turning C sinks into C sources or vice versa. This is demonstrated not only for earthworms and other larger invertebrates but also for smaller fauna such as Collembola. We suggest that inclusion of soil animal activities (plant residue consumption and bioturbation altering the formation, depth, hydraulic properties and physical heterogeneity of soils) can fundamentally affect the predictive outcome of SOM models. Understanding direct and indirect impacts of soil fauna on nutrient availability, carbon sequestration, greenhouse gas emissions and plant growth is key to the understanding of SOM dynamics in the context of global carbon cycling models. We argue that explicit consideration of soil fauna is essential to make realistic modelling predictions on SOM dynamics and to detect expected non-linear responses of SOM dynamics to global change. We present a decision framework, to be further developed through the activities of KEYSOM, a European COST Action, for when mechanistic SOM models

Evaluation of potential effects of soil available phosphorus on soil arsenic availability and paddy rice inorganic arsenic content.

Science.gov (United States)

Jiang, Wei; Hou, Qingye; Yang, Zhongfang; Zhong, Cong; Zheng, Guodong; Yang, Zhiqiang; Li, Jie

2014-05-01

The transfer of arsenic from paddy field to rice is a major exposure route of the highly toxic element to humans. The aim of our study is to explore the effects of soil available phosphorus on As uptake by rice, and identify the effects of soil properties on arsenic transfer from soil to rice under actual field conditions. 56 pairs of topsoil and rice samples were collected. The relevant parameters in soil and the inorganic arsenic in rice grains were analyzed, and then all the results were treated by statistical methods. Results show that the main factors influencing the uptake by rice grain include soil pH and available phosphorus. The eventual impact of phosphorus is identified as the suppression of As uptake by rice grains. The competition for transporters from soil to roots between arsenic and phosphorus in rhizosphere soil has been a dominant feature. Copyright © 2014 Elsevier Ltd. All rights reserved.

Effects of dairy manure management in annual and perennial cropping systems on soil microbial communities associated with in situ N2O fluxes

Science.gov (United States)

Dunfield, Kari; Thompson, Karen; Bent, Elizabeth; Abalos, Diego; Wagner-Riddle, Claudia

2016-04-01

Liquid dairy manure (LDM) application and ploughing events may affect soil microbial community functioning differently between perennial and annual cropping systems due to plant-specific characteristics stimulating changes in microbial community structure. Understanding how these microbial communities change in response to varied management, and how these changes relate to in situ N2O fluxes may allow the creation of predictive models for use in the development of best management practices (BMPs) to decrease nitrogen (N) losses through choice of crop, plough, and LDM practices. Our objectives were to contrast changes in the population sizes and community structures of genes associated with nitrifier (amoA, crenamoA) and denitrifier (nirK, nirS, nosZ) communities in differently managed annual and perennial fields demonstrating variation in N2O flux, and to determine if differences in these microbial communities were linked to the observed variation in N2O fluxes. Soil was sampled in 2012 and in 2014 in a 4-ha spring-applied LDM grass-legume (perennial) plot and two 4-ha corn (annual) treatments under fall or spring LDM application. Soil DNA was extracted and used to target N-cycling genes via qPCR (n=6) and for next-generation sequencing (Illumina Miseq) (n=3). Significantly higher field-scale N2O fluxes were observed in the annual plots compared to the perennial system; however N2O fluxes increased after plough down of the perennial plot. Nonmetric multidimensional scaling (NMS) indicated differences in N-cycling communities between annual and perennial cropping systems, and some communities became similar between annual and perennial plots after ploughing. Shifts in these communities demonstrated relationships with agricultural management, which were associated with differences in N2O flux. Indicator species analysis was used to identify operational taxonomic units (OTUs) most responsible for community shifts related to management. Nitrifying and denitrifying soil

Soil microbial communities and glyphosate decay in soils with different herbicide application history.

Science.gov (United States)

Guijarro, Keren Hernández; Aparicio, Virginia; De Gerónimo, Eduardo; Castellote, Martín; Figuerola, Eva L; Costa, José Luis; Erijman, Leonardo

2018-04-11

This study evaluates the glyphosate dissipation under field conditions in three types of soil, and aims to determine the importance of the following factors in the environmental persistence of herbicide: i) soil bacterial communities, ii) soil physicochemical properties, iii) previous exposure to the herbicide. A soil without previous record of GP application (P0) and two agricultural soils, with 5 and >10years of GP exposure (A5 and A10) were subjected to the application of glyphosate at doses of 3mg·kg -1 . The concentration of GP and AMPA was determined over time and the dynamics of soil bacterial communities was evaluated using 16S ARN ribosomal gene amplicon-sequencing. The GP exposure history affected the rate but not the extent of GP biodegradation. The herbicide was degraded rapidly, but P0 soil showed a dissipation rate significantly lower than soils with agricultural history. In P0 soil, a significant increase in the relative abundance of Bacteroidetes was observed in response to herbicide application. More generally, all soils displayed shifts in bacterial community structure, which nevertheless could not be clearly associated to glyphosate dissipation, suggesting the presence of redundant bacteria populations of potential degraders. Yet the application of the herbicide prompted a partial disruption of the bacterial association network of unexposed soil. On the other hand, higher values of linear (Kd) and nonlinear (Kf) sorption coefficient in P0 point to the relevance of cation exchange capacity (CEC), clay and organic matter to the capacity of soil to adsorb the herbicide, suggesting that bioavailability was a key factor for the persistence of GP and AMPA. These results contribute to understand the relationship between bacterial taxa exposed to the herbicide, and the importance of soil properties as predictors of the possible rate of degradation and persistence of glyphosate in soil. Copyright © 2018 Elsevier B.V. All rights reserved.

Interactive effects of preindustrial, current and future atmospheric CO2 concentrations and temperature on soil fungi associated with two Eucalyptus species.

Science.gov (United States)

Anderson, Ian C; Drigo, Barbara; Keniry, Kerry; Ghannoum, Oula; Chambers, Susan M; Tissue, David T; Cairney, John W G

2013-02-01

Soil microbial processes have a central role in global fluxes of the key biogenic greenhouse gases and are likely to respond rapidly to climate change. Whether climate change effects on microbial processes lead to a positive or negative feedback for terrestrial ecosystem resilience is unclear. In this study, we investigated the interactive effects of [CO(2)] and temperature on soil fungi associated with faster-growing Eucalyptus saligna and slower-growing Eucalyptus sideroxylon, and fungi that colonised hyphal in-growth bags. Plants were grown in native soil under controlled soil moisture conditions, while subjecting the above-ground compartment to defined atmospheric conditions differing in CO(2) concentrations (290, 400, 650 μL L(-1)) and temperature (26 and 30 °C). Terminal restriction fragment length polymorphism and sequencing methods were used to examine effects on the structure of the soil fungal communities. There was no significant effect of host plant or [CO(2)]/temperature treatment on fungal species richness (α diversity); however, there was a significant effect on soil fungal community composition (β diversity) which was strongly influenced by eucalypt species. Interestingly, β diversity of soil fungi associated with both eucalypt species was significantly influenced by the elevated [CO(2) ]/high temperature treatment, suggesting that the combination of future predicted levels of atmospheric [CO(2)] and projected increases in global temperature will significantly alter soil fungal community composition in eucalypt forest ecosystems, independent of eucalypt species composition. These changes may arise through direct effects of changes in [CO(2)] and temperature on soil fungi or through indirect effects, which is likely the case in this study given the plant-dependent nature of our observations. This study highlights the role of plant species in moderating below-ground responses to future predicted changes to [CO(2)] and temperature and the

The relative abundance of predicted genes associated with ammonia-oxidation, nitrate reduction, and biomass decomposition in mineral soil are altered by intensive timber harvest.

Science.gov (United States)

Mushinski, R. M.; Zhou, Y.; Gentry, T. J.; Boutton, T. W.

2017-12-01

Forest ecosystems in the southern United States are substantially altered by anthropogenic disturbances such as timber harvest and land conversion, with effects being observed in carbon and nutrient pools as well as biogeochemical processes. Furthermore, the desire to develop renewable energy sources in the form of biomass extraction from logging residues may result in alterations in soil community structure and function. While the impact of forest management on soil physicochemical properties of the region has been studied, its' long-term effect on soil bacterial community composition and metagenomic potential is relatively unknown, especially at deeper soil depths. This study investigates how intensive organic matter removal intensities associated with timber harvest influence decadal-scale alterations in bacterial community structure and functional potential in the upper 1-m of the soil profile, 18 years post-harvest in a Pinus taeda L. forest of eastern Texas. Amplicon sequencing of the 16S rRNA gene was used in conjunction with soil chemical analyses to evaluate treatment-induced differences in community composition and potential environmental drivers of associated change. Furthermore, functional potential was assessed by using amplicon data to make metagenomic predictions. Results indicate that increasing organic matter removal intensity leads to altered community composition and the relative abundance of dominant OTUs annotated to Burkholderia and Aciditerrimonas. The relative abundance of predicted genes associated with dissimilatory nitrate reduction and denitrification were highest in the most intensively harvested treatment while genes involved in nitrification were significantly lower in the most intensively harvested treatment. Furthermore, genes associated with glycosyltransferases were significantly reduced with increasing harvest intensity while polysaccharide lyases increased. These results imply that intensive organic matter removal may create

Detecting and analyzing soil phosphorus loss associated with critical source areas using a remote sensing approach.

Science.gov (United States)

Lou, Hezhen; Yang, Shengtian; Zhao, Changsen; Shi, Liuhua; Wu, Linna; Wang, Yue; Wang, Zhiwei

2016-12-15

The detection of critical source areas (CSAs) is a key step in managing soil phosphorus (P) loss and preventing the long-term eutrophication of water bodies at regional scale. Most related studies, however, focus on a local scale, which prevents a clear understanding of the spatial distribution of CSAs for soil P loss at regional scale. Moreover, the continual, long-term variation in CSAs was scarcely reported. It is impossible to identify the factors driving the variation in CSAs, or to collect land surface information essential for CSAs detection, by merely using the conventional methodologies at regional scale. This study proposes a new regional-scale approach, based on three satellite sensors (ASTER, TM/ETM and MODIS), that were implemented successfully to detect CSAs at regional scale over 15years (2000-2014). The approach incorporated five factors (precipitation, slope, soil erosion, land use, soil total phosphorus) that drive soil P loss from CSAs. Results show that the average area of critical phosphorus source areas (CPSAs) was 15,056km 2 over the 15-year period, and it occupied 13.8% of the total area, with a range varying from 1.2% to 23.0%, in a representative, intensive agricultural area of China. In contrast to previous studies, we found that the locations of CSAs with P loss are spatially variable, and are more dispersed in their distribution over the long term. We also found that precipitation acts as a key driving factor in the variation of CSAs at regional scale. The regional-scale method can provide scientific guidance for managing soil phosphorus loss and preventing the long-term eutrophication of water bodies at regional scale, and shows great potential for exploring factors that drive the variation in CSAs at global scale. Copyright © 2016 Elsevier B.V. All rights reserved.

Plant-associated fluorescent Pseudomonas from red lateritic soil: Beneficial characteristics and their impact on lettuce growth.

Science.gov (United States)

Maroniche, Guillermo A; Rubio, Esteban J; Consiglio, Adrián; Perticari, Alejandro

2016-11-25

Fluorescent Pseudomonas are ubiquitous soil bacteria that usually establish mutualistic associations with plants, promoting their growth and health by several mechanisms. This makes them interesting candidates for the development of crop bio-inoculants. In this work, we isolated phosphate-solubilizing fluorescent Pseudomonas from the rhizosphere and inner tissues of different plant species growing in red soil from Misiones, Argentina. Seven isolates displaying strong phosphate solubilization were selected for further studies. Molecular identification by rpoD genotyping indicated that they belong to different species within the P. fluorescens and P. putida phylogenetic groups. Screening for in vitro traits such as phosphate solubilization, growth regulators synthesis or degradation, motility and antagonism against phytopathogens or other bacteria, revealed a unique profile of characteristics for each strain. Their plant growth-promoting potential was assayed using lettuce as a model for inoculation under controlled and greenhouse conditions. Five of the strains increased the growth of lettuce plants. Overall, the strongest lettuce growth promoter under both conditions was strain ZME4, isolated from inner tissues of maize. No clear association between lettuce growth promotion and in vitro beneficial traits was detected. In conclusion, several phosphate solubilizing pseudomonads from red soil were isolated that display a rich array of plant growth promotion traits, thus showing a potential for the development of new inoculants.

Impact of Soil Conservation Measures on Erosion Control and Soil Quality

International Nuclear Information System (INIS)

2011-10-01

This publication summarises the lessons learnt from a FAO/IAEA coordinated research project on the impact of soil conservation measures on erosion control and soil quality over a five-year period across a wide geographic area and range of environments. It demonstrates the new trends in the use of fallout radionuclide-based techniques as powerful tools to assess the effectiveness of soil conservation measures. As a comprehensive reference material it will support IAEA Member States in the use of these techniques to identify practices that can enhance sustainable agriculture and minimize land degradation.

Microorganisms as Indicators of Soil Health

DEFF Research Database (Denmark)

Nielsen, M. N.; Winding, A.; Binnerup, S.

ecosystem parameters representing policy relevant end points. It is further recommended to identify a specific minimum data set for specific policy relevant end points, to carefully establish baseline values, to improve scientific knowledge on biodiversity and modelling of soil data, and to implement new......Microorganisms are an essential part of living soil and of outmost importance for soil health. As such they can be used as indicators of soil health. This report reviews the current and potential future use of microbial indicators of soil health and recommends specific microbial indicators for soil...... indicators into soil monitoring programmes as they become applicable....

Potentially toxic metal contamination of urban soils and roadside dust in Shanghai, China

International Nuclear Information System (INIS)

Shi Guitao; Chen Zhenlou; Xu Shiyuan; Zhang Ju; Wang Li; Bi Chunjuan; Teng Jiyan

2008-01-01

A detailed investigation was conducted to understand the contamination characteristics of a selected set of potentially toxic metals in Shanghai. The amount of Pb, Zn, Cu, Cr, Cd and Ni were determined from 273 soil/dust samples collected within urban area. The results indicated that concentration of all metals except Ni in soils was significant, and metal pollution was even severer in roadside dust. A series of metal spatial distribution maps were created through geostatistical analysis, and the pollution hotspots tended to associate with city core area, major road junctions, and the regions close to industrial zones. In attempt of identifying the source of metals through geostatistical and multivariate statistical analyses, it was concluded as follows: Pb, Zn and Cu mainly originated from traffic contaminants; soil Ni was associated with natural concentration; Cd largely came from point-sourced industrial pollution; and Cr, Ni in dust were mainly related to atmospheric deposition. - Human activities have led to high accumulation of potentially toxic metals in urban soils and roadside dust of Shanghai

Potentially toxic metal contamination of urban soils and roadside dust in Shanghai, China

Energy Technology Data Exchange (ETDEWEB)

Shi Guitao [Key Laboratory of Geographic Information Science of Ministry of Education, East China Normal University, Shanghai 200062 (China); Chen Zhenlou [Key Laboratory of Geographic Information Science of Ministry of Education, East China Normal University, Shanghai 200062 (China)], E-mail: gt_shi@163.com; Xu Shiyuan [Key Laboratory of Geographic Information Science of Ministry of Education, East China Normal University, Shanghai 200062 (China); Zhang Ju [School of Environment and Planning, Liaocheng University, Liaocheng 252059 (China); Wang Li; Bi Chunjuan [Key Laboratory of Geographic Information Science of Ministry of Education, East China Normal University, Shanghai 200062 (China); Teng Jiyan [Shanghai Chongming Dongtan National Nature Reserve, Shanghai 202183 (China)

2008-11-15

A detailed investigation was conducted to understand the contamination characteristics of a selected set of potentially toxic metals in Shanghai. The amount of Pb, Zn, Cu, Cr, Cd and Ni were determined from 273 soil/dust samples collected within urban area. The results indicated that concentration of all metals except Ni in soils was significant, and metal pollution was even severer in roadside dust. A series of metal spatial distribution maps were created through geostatistical analysis, and the pollution hotspots tended to associate with city core area, major road junctions, and the regions close to industrial zones. In attempt of identifying the source of metals through geostatistical and multivariate statistical analyses, it was concluded as follows: Pb, Zn and Cu mainly originated from traffic contaminants; soil Ni was associated with natural concentration; Cd largely came from point-sourced industrial pollution; and Cr, Ni in dust were mainly related to atmospheric deposition. - Human activities have led to high accumulation of potentially toxic metals in urban soils and roadside dust of Shanghai.

Geographical and pedological drivers of distribution and risks to soil fauna of seven metals (Cd, Cu, Cr, Ni, Pb, V and Zn) in British soils.

Science.gov (United States)

Spurgeon, David J; Rowland, Philip; Ainsworth, Gillian; Rothery, Peter; Long, Sara; Black, Helaina I J

2008-05-01

Concentrations of seven metals were measured in over 1000 samples as part of an integrated survey. Sixteen metal pairs were significantly positively correlated. Cluster analysis identified two clusters. Metals from the largest (Cr, Cu, Ni, V, Zn), but not the smallest (Cd, Pb) cluster were significantly negatively correlated with spatial location and soil pH and organic matter content. Cd and Pb were not correlated with these parameters, due possibly to the masking effect of recent extensive release. Analysis of trends with soil properties in different habitats indicated that general trends may not necessarily be applicable to all areas. A risk assessment indicated that Zn poses the most widespread direct risk to soil fauna and Cd the least. Any risks associated with high metal concentrations are, however, likely to be greatest in habitats such as arable and horticultural, improved grassland and built up areas where soil metal concentrations are more frequently elevated.

Soil process-oriented modelling of within-field variability based on high-resolution 3D soil type distribution maps.

Science.gov (United States)

Bönecke, Eric; Lück, Erika; Gründling, Ralf; Rühlmann, Jörg; Franko, Uwe

2016-04-01

Today, the knowledge of within-field variability is essential for numerous purposes, including practical issues, such as precision and sustainable soil management. Therefore, process-oriented soil models have been applied for a considerable time to answer question of spatial soil nutrient and water dynamics, although, they can only be as consistent as their variation and resolution of soil input data. Traditional approaches, describe distribution of soil types, soil texture or other soil properties for greater soil units through generalised point information, e.g. from classical soil survey maps. Those simplifications are known to be afflicted with large uncertainties. Varying soil, crop or yield conditions are detected even within such homogenised soil units. However, recent advances of non-invasive soil survey and on-the-go monitoring techniques, made it possible to obtain vertical and horizontal dense information (3D) about various soil properties, particularly soil texture distribution which serves as an essential soil key variable affecting various other soil properties. Thus, in this study we based our simulations on detailed 3D soil type distribution (STD) maps (4x4 m) to adjacently built-up sufficient informative soil profiles including various soil physical and chemical properties. Our estimates of spatial STD are based on high-resolution lateral and vertical changes of electrical resistivity (ER), detected by a relatively new multi-sensor on-the-go ER monitoring device. We performed an algorithm including fuzzy-c-mean (FCM) logic and traditional soil classification to estimate STD from those inverted and layer-wise available ER data. STD is then used as key input parameter for our carbon, nitrogen and water transport model. We identified Pedological horizon depths and inferred hydrological soil variables (field capacity, permanent wilting point) from pedotransferfunctions (PTF) for each horizon. Furthermore, the spatial distribution of soil organic carbon

Qualitative evaluation of heavy metals in soils using portable XRF instruments

International Nuclear Information System (INIS)

McCain, R.G.

1993-10-01

Portable isotope-source energy dispersive x-ray fluorescence (XRF) analyzers can provide rapid on site screening for heavy metals in soils. Their use generally involves empirical calibration to a suite of representative soil samples spiked with a range of concentrations of the analytes of interest. In most cases, only a limited number of analytes can be measured with this approach, because of constraints imposed by the operational software and costs associated with preparing the calibration suite. A simple approach is described that provides a qualitative indication of anomalous concentrations of heavy metals based on numeric comparison of gross count rates to background values. This approach can rapidly identify contaminated soils and does not depend on a suite of calibration samples. Direct measurements can be made to rapidly map soil contamination without sample collection, and the method can also be applied to other surfaces such as concrete

Oligotyping reveals stronger relationship of organic soil bacterial community structure with N-amendments and soil chemistry in comparison to that of mineral soil at Harvard Forest, MA, USA.

Science.gov (United States)

Turlapati, Swathi A; Minocha, Rakesh; Long, Stephanie; Ramsdell, Jordan; Minocha, Subhash C

2015-01-01

The impact of chronic nitrogen amendments on bacterial communities was evaluated at Harvard Forest, Petersham, MA, USA. Thirty soil samples (3 treatments × 2 soil horizons × 5 subplots) were collected in 2009 from untreated (control), low nitrogen-amended (LN; 50 kg NH4NO3 ha(-1) yr(-1)) and high nitrogen-amended (HN; 150 kg NH4NO3 ha(-1) yr(-1)) plots. PCR-amplified partial 16S rRNA gene sequences made from soil DNA were subjected to pyrosequencing (Turlapati et al., 2013) and analyses using oligotyping. The parameters M (the minimum count of the most abundant unique sequence in an oligotype) and s (the minimum number of samples in which an oligotype is expected to be present) had to be optimized for forest soils because of high diversity and the presence of rare organisms. Comparative analyses of the pyrosequencing data by oligotyping and operational taxonomic unit clustering tools indicated that the former yields more refined units of taxonomy with sequence similarity of ≥99.5%. Sequences affiliated with four new phyla and 73 genera were identified in the present study as compared to 27 genera reported earlier from the same data (Turlapati et al., 2013). Significant rearrangements in the bacterial community structure were observed with N-amendments revealing the presence of additional genera in N-amended plots with the absence of some that were present in the control plots. Permutational MANOVA analyses indicated significant variation associated with soil horizon and N treatment for a majority of the phyla. In most cases soil horizon partitioned more variation relative to treatment and treatment effects were more evident for the organic (Org) horizon. Mantel test results for Org soil showed significant positive correlations between bacterial communities and most soil parameters including NH4 and NO3. In mineral soil, correlations were seen only with pH, NH4, and NO3. Regardless of the pipeline used, a major hindrance for such a study remains to be the lack

Termite Infestation Associated with Type of Soil in Pulau Pinang, Malaysia (Isoptera: Rhinotermitidae)

OpenAIRE

Majid, Abdul Hafiz Ab; Ahmad, Abu Hassan

2013-01-01

Nine soil samples from nine buildings infested with Coptotermes gestroi in Pulau Pinang, Malaysia, were tested for the type of soil texture. The soil texture analysis procedures used the hydrometer method. Four of nine buildings (44%) yielded loamy sand-type soil, whereas five of nine buildings (56%) contained sandy loam-type soil.

Termite infestation associated with type of soil in pulau pinang, malaysia (isoptera: rhinotermitidae).

Science.gov (United States)

Majid, Abdul Hafiz Ab; Ahmad, Abu Hassan

2013-12-01

Nine soil samples from nine buildings infested with Coptotermes gestroi in Pulau Pinang, Malaysia, were tested for the type of soil texture. The soil texture analysis procedures used the hydrometer method. Four of nine buildings (44%) yielded loamy sand-type soil, whereas five of nine buildings (56%) contained sandy loam-type soil.

Clay Dispersibility and Soil Friability-Testing the Soil Clay-to-Carbon Saturation Concept

DEFF Research Database (Denmark)

Schjønning, Per; de Jonge, Lis Wollesen; Munkholm, Lars Juhl

2012-01-01

Soil organic carbon (OC) influences clay dispersibility, which affects soil tilth conditions and the risk of vertical migration of clay colloids. No universal lower threshold of OC has been identified for satisfactory stabilization of soil structure. We tested the concept of clay saturation with OC...... as a predictor of clay dispersibility and soil friability. Soil was sampled 3 yr in a field varying in clay content (∼100 to ∼220 g kg−1 soil) and grown with different crop rotations. Clay dispersibility was measured after end-over-end shaking of field-moist soil and 1- to 2-mm sized aggregates either air......-dried or rewetted to −100 hPa matric potential. Tensile strength of 1- to 2-, 2- to 4-, 4- to 8-, and 8- to 16-mm air-dried aggregates was calculated from their compressive strength, and soil friability estimated from the strength–volume relation. Crop rotation characteristics gave only minor effects on clay...

Large-scale genotyping identifies 41 new loci associated with breast cancer risk.

Science.gov (United States)

Michailidou, Kyriaki; Hall, Per; Gonzalez-Neira, Anna; Ghoussaini, Maya; Dennis, Joe; Milne, Roger L; Schmidt, Marjanka K; Chang-Claude, Jenny; Bojesen, Stig E; Bolla, Manjeet K; Wang, Qin; Dicks, Ed; Lee, Andrew; Turnbull, Clare; Rahman, Nazneen; Fletcher, Olivia; Peto, Julian; Gibson, Lorna; Dos Santos Silva, Isabel; Nevanlinna, Heli; Muranen, Taru A; Aittomäki, Kristiina; Blomqvist, Carl; Czene, Kamila; Irwanto, Astrid; Liu, Jianjun; Waisfisz, Quinten; Meijers-Heijboer, Hanne; Adank, Muriel; van der Luijt, Rob B; Hein, Rebecca; Dahmen, Norbert; Beckman, Lars; Meindl, Alfons; Schmutzler, Rita K; Müller-Myhsok, Bertram; Lichtner, Peter; Hopper, John L; Southey, Melissa C; Makalic, Enes; Schmidt, Daniel F; Uitterlinden, Andre G; Hofman, Albert; Hunter, David J; Chanock, Stephen J; Vincent, Daniel; Bacot, François; Tessier, Daniel C; Canisius, Sander; Wessels, Lodewyk F A; Haiman, Christopher A; Shah, Mitul; Luben, Robert; Brown, Judith; Luccarini, Craig; Schoof, Nils; Humphreys, Keith; Li, Jingmei; Nordestgaard, Børge G; Nielsen, Sune F; Flyger, Henrik; Couch, Fergus J; Wang, Xianshu; Vachon, Celine; Stevens, Kristen N; Lambrechts, Diether; Moisse, Matthieu; Paridaens, Robert; Christiaens, Marie-Rose; Rudolph, Anja; Nickels, Stefan; Flesch-Janys, Dieter; Johnson, Nichola; Aitken, Zoe; Aaltonen, Kirsimari; Heikkinen, Tuomas; Broeks, Annegien; Veer, Laura J Van't; van der Schoot, C Ellen; Guénel, Pascal; Truong, Thérèse; Laurent-Puig, Pierre; Menegaux, Florence; Marme, Frederik; Schneeweiss, Andreas; Sohn, Christof; Burwinkel, Barbara; Zamora, M Pilar; Perez, Jose Ignacio Arias; Pita, Guillermo; Alonso, M Rosario; Cox, Angela; Brock, Ian W; Cross, Simon S; Reed, Malcolm W R; Sawyer, Elinor J; Tomlinson, Ian; Kerin, Michael J; Miller, Nicola; Henderson, Brian E; Schumacher, Fredrick; Le Marchand, Loic; Andrulis, Irene L; Knight, Julia A; Glendon, Gord; Mulligan, Anna Marie; Lindblom, Annika; Margolin, Sara; Hooning, Maartje J; Hollestelle, Antoinette; van den Ouweland, Ans M W; Jager, Agnes; Bui, Quang M; Stone, Jennifer; Dite, Gillian S; Apicella, Carmel; Tsimiklis, Helen; Giles, Graham G; Severi, Gianluca; Baglietto, Laura; Fasching, Peter A; Haeberle, Lothar; Ekici, Arif B; Beckmann, Matthias W; Brenner, Hermann; Müller, Heiko; Arndt, Volker; Stegmaier, Christa; Swerdlow, Anthony; Ashworth, Alan; Orr, Nick; Jones, Michael; Figueroa, Jonine; Lissowska, Jolanta; Brinton, Louise; Goldberg, Mark S; Labrèche, France; Dumont, Martine; Winqvist, Robert; Pylkäs, Katri; Jukkola-Vuorinen, Arja; Grip, Mervi; Brauch, Hiltrud; Hamann, Ute; Brüning, Thomas; Radice, Paolo; Peterlongo, Paolo; Manoukian, Siranoush; Bonanni, Bernardo; Devilee, Peter; Tollenaar, Rob A E M; Seynaeve, Caroline; van Asperen, Christi J; Jakubowska, Anna; Lubinski, Jan; Jaworska, Katarzyna; Durda, Katarzyna; Mannermaa, Arto; Kataja, Vesa; Kosma, Veli-Matti; Hartikainen, Jaana M; Bogdanova, Natalia V; Antonenkova, Natalia N; Dörk, Thilo; Kristensen, Vessela N; Anton-Culver, Hoda; Slager, Susan; Toland, Amanda E; Edge, Stephen; Fostira, Florentia; Kang, Daehee; Yoo, Keun-Young; Noh, Dong-Young; Matsuo, Keitaro; Ito, Hidemi; Iwata, Hiroji; Sueta, Aiko; Wu, Anna H; Tseng, Chiu-Chen; Van Den Berg, David; Stram, Daniel O; Shu, Xiao-Ou; Lu, Wei; Gao, Yu-Tang; Cai, Hui; Teo, Soo Hwang; Yip, Cheng Har; Phuah, Sze Yee; Cornes, Belinda K; Hartman, Mikael; Miao, Hui; Lim, Wei Yen; Sng, Jen-Hwei; Muir, Kenneth; Lophatananon, Artitaya; Stewart-Brown, Sarah; Siriwanarangsan, Pornthep; Shen, Chen-Yang; Hsiung, Chia-Ni; Wu, Pei-Ei; Ding, Shian-Ling; Sangrajrang, Suleeporn; Gaborieau, Valerie; Brennan, Paul; McKay, James; Blot, William J; Signorello, Lisa B; Cai, Qiuyin; Zheng, Wei; Deming-Halverson, Sandra; Shrubsole, Martha; Long, Jirong; Simard, Jacques; Garcia-Closas, Montse; Pharoah, Paul D P; Chenevix-Trench, Georgia; Dunning, Alison M; Benitez, Javier; Easton, Douglas F

2013-04-01

Breast cancer is the most common cancer among women. Common variants at 27 loci have been identified as associated with susceptibility to breast cancer, and these account for ∼9% of the familial risk of the disease. We report here a meta-analysis of 9 genome-wide association studies, including 10,052 breast cancer cases and 12,575 controls of European ancestry, from which we selected 29,807 SNPs for further genotyping. These SNPs were genotyped in 45,290 cases and 41,880 controls of European ancestry from 41 studies in the Breast Cancer Association Consortium (BCAC). The SNPs were genotyped as part of a collaborative genotyping experiment involving four consortia (Collaborative Oncological Gene-environment Study, COGS) and used a custom Illumina iSelect genotyping array, iCOGS, comprising more than 200,000 SNPs. We identified SNPs at 41 new breast cancer susceptibility loci at genome-wide significance (P breast cancer susceptibility.

A Multiomics Approach to Identify Genes Associated with Childhood Asthma Risk and Morbidity.

Science.gov (United States)

Forno, Erick; Wang, Ting; Yan, Qi; Brehm, John; Acosta-Perez, Edna; Colon-Semidey, Angel; Alvarez, Maria; Boutaoui, Nadia; Cloutier, Michelle M; Alcorn, John F; Canino, Glorisa; Chen, Wei; Celedón, Juan C

2017-10-01

Childhood asthma is a complex disease. In this study, we aim to identify genes associated with childhood asthma through a multiomics "vertical" approach that integrates multiple analytical steps using linear and logistic regression models. In a case-control study of childhood asthma in Puerto Ricans (n = 1,127), we used adjusted linear or logistic regression models to evaluate associations between several analytical steps of omics data, including genome-wide (GW) genotype data, GW methylation, GW expression profiling, cytokine levels, asthma-intermediate phenotypes, and asthma status. At each point, only the top genes/single-nucleotide polymorphisms/probes/cytokines were carried forward for subsequent analysis. In step 1, asthma modified the gene expression-protein level association for 1,645 genes; pathway analysis showed an enrichment of these genes in the cytokine signaling system (n = 269 genes). In steps 2-3, expression levels of 40 genes were associated with intermediate phenotypes (asthma onset age, forced expiratory volume in 1 second, exacerbations, eosinophil counts, and skin test reactivity); of those, methylation of seven genes was also associated with asthma. Of these seven candidate genes, IL5RA was also significant in analytical steps 4-8. We then measured plasma IL-5 receptor α levels, which were associated with asthma age of onset and moderate-severe exacerbations. In addition, in silico database analysis showed that several of our identified IL5RA single-nucleotide polymorphisms are associated with transcription factors related to asthma and atopy. This approach integrates several analytical steps and is able to identify biologically relevant asthma-related genes, such as IL5RA. It differs from other methods that rely on complex statistical models with various assumptions.

Dependence of the concentrations of "1"3"7Cs and potassium in extracted soil solutions on soil humidity before centrifugation

International Nuclear Information System (INIS)

Prorok, V.V.; Datsenko, O.Yi.; Bulavyin, L.A.; Zlens'kij, S.Je.; Melnichenko, L.Yu.; Rozuvan, S.G.; Poperenko, L.V.; White, P.J.

2017-01-01

Concentrations of 137Cs and potassium in solutions extracted by centrifugation from soils selected at some experimental sites in the 10-km Exclusion Zone of Chornobyl Nuclear Plant were determined. The results showed that for the majority of investigated soils, the concentration of 137Cs in soil solution depends on the humidity of the soil before centrifugation. It is possible to explain the dependence of the concentration of 137Cs in the soil solution on soil humidity from the dependence of the concentrations of molecules of different molecular-gravimetric fractions in soil solution on soil humidity. Considerable amount of 137Cs in soil solution is associated with these molecules, that is why the concentration of 137Cs in the extracted soil solution changes with the humidity of soil. These dependences differ between soils. For the majority of investigated soils the concentration of 137Cs in the extracted soil solution increases with increasing humidity of the soil. By contrast, soil humidity had no effect on the potassium concentration in the extracted soil solution for any soil investigated. It is concluded, that potassium is practically not associated with molecules of different molecular-gravimetric fractions in the extracted soil solutions

A study of the utilization of ERTS-1 data from the Wabash River Basin. [crop identification, water resources, urban land use, soil mapping, and atmospheric modeling

Science.gov (United States)

Landgrebe, D. A. (Principal Investigator)

1974-01-01

The author has identified the following significant results. The most significant results were obtained in the water resources research, urban land use mapping, and soil association mapping projects. ERTS-1 data was used to classify water bodies to determine acreages and high agreement was obtained with USGS figures. Quantitative evaluation was achieved of urban land use classifications from ERTS-1 data and an overall test accuracy of 90.3% was observed. ERTS-1 data classifications of soil test sites were compared with soil association maps scaled to match the computer produced map and good agreement was observed. In some cases the ERTS-1 results proved to be more accurate than the soil association map.

Association analysis identifies 65 new breast cancer risk loci

Science.gov (United States)

Lemaçon, Audrey; Soucy, Penny; Glubb, Dylan; Rostamianfar, Asha; Bolla, Manjeet K.; Wang, Qin; Tyrer, Jonathan; Dicks, Ed; Lee, Andrew; Wang, Zhaoming; Allen, Jamie; Keeman, Renske; Eilber, Ursula; French, Juliet D.; Chen, Xiao Qing; Fachal, Laura; McCue, Karen; McCart Reed, Amy E.; Ghoussaini, Maya; Carroll, Jason; Jiang, Xia; Finucane, Hilary; Adams, Marcia; Adank, Muriel A.; Ahsan, Habibul; Aittomäki, Kristiina; Anton-Culver, Hoda; Antonenkova, Natalia N.; Arndt, Volker; Aronson, Kristan J.; Arun, Banu; Auer, Paul L.; Bacot, François; Barrdahl, Myrto; Baynes, Caroline; Beckmann, Matthias W.; Behrens, Sabine; Benitez, Javier; Bermisheva, Marina; Bernstein, Leslie; Blomqvist, Carl; Bogdanova, Natalia V.; Bojesen, Stig E.; Bonanni, Bernardo; Børresen-Dale, Anne-Lise; Brand, Judith S.; Brauch, Hiltrud; Brennan, Paul; Brenner, Hermann; Brinton, Louise; Broberg, Per; Brock, Ian W.; Broeks, Annegien; Brooks-Wilson, Angela; Brucker, Sara Y.; Brüning, Thomas; Burwinkel, Barbara; Butterbach, Katja; Cai, Qiuyin; Cai, Hui; Caldés, Trinidad; Canzian, Federico; Carracedo, Angel; Carter, Brian D.; Castelao, Jose E.; Chan, Tsun L.; Cheng, Ting-Yuan David; Chia, Kee Seng; Choi, Ji-Yeob; Christiansen, Hans; Clarke, Christine L.; Collée, Margriet; Conroy, Don M.; Cordina-Duverger, Emilie; Cornelissen, Sten; Cox, David G; Cox, Angela; Cross, Simon S.; Cunningham, Julie M.; Czene, Kamila; Daly, Mary B.; Devilee, Peter; Doheny, Kimberly F.; Dörk, Thilo; dos-Santos-Silva, Isabel; Dumont, Martine; Durcan, Lorraine; Dwek, Miriam; Eccles, Diana M.; Ekici, Arif B.; Eliassen, A. Heather; Ellberg, Carolina; Elvira, Mingajeva; Engel, Christoph; Eriksson, Mikael; Fasching, Peter A.; Figueroa, Jonine; Flesch-Janys, Dieter; Fletcher, Olivia; Flyger, Henrik; Fritschi, Lin; Gaborieau, Valerie; Gabrielson, Marike; Gago-Dominguez, Manuela; Gao, Yu-Tang; Gapstur, Susan M.; García-Sáenz, José A.; Gaudet, Mia M.; Georgoulias, Vassilios; Giles, Graham G.; Glendon, Gord; Goldberg, Mark S.; Goldgar, David E.; González-Neira, Anna; Grenaker Alnæs, Grethe I.; Grip, Mervi; Gronwald, Jacek; Grundy, Anne; Guénel, Pascal; Haeberle, Lothar; Hahnen, Eric; Haiman, Christopher A.; Håkansson, Niclas; Hamann, Ute; Hamel, Nathalie; Hankinson, Susan; Harrington, Patricia; Hart, Steven N.; Hartikainen, Jaana M.; Hartman, Mikael; Hein, Alexander; Heyworth, Jane; Hicks, Belynda; Hillemanns, Peter; Ho, Dona N.; Hollestelle, Antoinette; Hooning, Maartje J.; Hoover, Robert N.; Hopper, John L.; Hou, Ming-Feng; Hsiung, Chia-Ni; Huang, Guanmengqian; Humphreys, Keith; Ishiguro, Junko; Ito, Hidemi; Iwasaki, Motoki; Iwata, Hiroji; Jakubowska, Anna; Janni, Wolfgang; John, Esther M.; Johnson, Nichola; Jones, Kristine; Jones, Michael; Jukkola-Vuorinen, Arja; Kaaks, Rudolf; Kabisch, Maria; Kaczmarek, Katarzyna; Kang, Daehee; Kasuga, Yoshio; Kerin, Michael J.; Khan, Sofia; Khusnutdinova, Elza; Kiiski, Johanna I.; Kim, Sung-Won; Knight, Julia A.; Kosma, Veli-Matti; Kristensen, Vessela N.; Krüger, Ute; Kwong, Ava; Lambrechts, Diether; Marchand, Loic Le; Lee, Eunjung; Lee, Min Hyuk; Lee, Jong Won; Lee, Chuen Neng; Lejbkowicz, Flavio; Li, Jingmei; Lilyquist, Jenna; Lindblom, Annika; Lissowska, Jolanta; Lo, Wing-Yee; Loibl, Sibylle; Long, Jirong; Lophatananon, Artitaya; Lubinski, Jan; Luccarini, Craig; Lux, Michael P.; Ma, Edmond S.K.; MacInnis, Robert J.; Maishman, Tom; Makalic, Enes; Malone, Kathleen E; Kostovska, Ivana Maleva; Mannermaa, Arto; Manoukian, Siranoush; Manson, JoAnn E.; Margolin, Sara; Mariapun, Shivaani; Martinez, Maria Elena; Matsuo, Keitaro; Mavroudis, Dimitrios; McKay, James; McLean, Catriona; Meijers-Heijboer, Hanne; Meindl, Alfons; Menéndez, Primitiva; Menon, Usha; Meyer, Jeffery; Miao, Hui; Miller, Nicola; Mohd Taib, Nur Aishah; Muir, Kenneth; Mulligan, Anna Marie; Mulot, Claire; Neuhausen, Susan L.; Nevanlinna, Heli; Neven, Patrick; Nielsen, Sune F.; Noh, Dong-Young; Nordestgaard, Børge G.; Norman, Aaron; Olopade, Olufunmilayo I.; Olson, Janet E.; Olsson, Håkan; Olswold, Curtis; Orr, Nick; Pankratz, V. Shane; Park, Sue K.; Park-Simon, Tjoung-Won; Lloyd, Rachel; Perez, Jose I.A.; Peterlongo, Paolo; Peto, Julian; Phillips, Kelly-Anne; Pinchev, Mila; Plaseska-Karanfilska, Dijana; Prentice, Ross; Presneau, Nadege; Prokofieva, Darya; Pugh, Elizabeth; Pylkäs, Katri; Rack, Brigitte; Radice, Paolo; Rahman, Nazneen; Rennert, Gadi; Rennert, Hedy S.; Rhenius, Valerie; Romero, Atocha; Romm, Jane; Ruddy, Kathryn J; Rüdiger, Thomas; Rudolph, Anja; Ruebner, Matthias; Rutgers, Emiel J. Th.; Saloustros, Emmanouil; Sandler, Dale P.; Sangrajrang, Suleeporn; Sawyer, Elinor J.; Schmidt, Daniel F.; Schmutzler, Rita K.; Schneeweiss, Andreas; Schoemaker, Minouk J.; Schumacher, Fredrick; Schürmann, Peter; Scott, Rodney J.; Scott, Christopher; Seal, Sheila; Seynaeve, Caroline; Shah, Mitul; Sharma, Priyanka; Shen, Chen-Yang; Sheng, Grace; Sherman, Mark E.; Shrubsole, Martha J.; Shu, Xiao-Ou; Smeets, Ann; Sohn, Christof; Southey, Melissa C.; Spinelli, John J.; Stegmaier, Christa; Stewart-Brown, Sarah; Stone, Jennifer; Stram, Daniel O.; Surowy, Harald; Swerdlow, Anthony; Tamimi, Rulla; Taylor, Jack A.; Tengström, Maria; Teo, Soo H.; Terry, Mary Beth; Tessier, Daniel C.; Thanasitthichai, Somchai; Thöne, Kathrin; Tollenaar, Rob A.E.M.; Tomlinson, Ian; Tong, Ling; Torres, Diana; Truong, Thérèse; Tseng, Chiu-chen; Tsugane, Shoichiro; Ulmer, Hans-Ulrich; Ursin, Giske; Untch, Michael; Vachon, Celine; van Asperen, Christi J.; Van Den Berg, David; van den Ouweland, Ans M.W.; van der Kolk, Lizet; van der Luijt, Rob B.; Vincent, Daniel; Vollenweider, Jason; Waisfisz, Quinten; Wang-Gohrke, Shan; Weinberg, Clarice R.; Wendt, Camilla; Whittemore, Alice S.; Wildiers, Hans; Willett, Walter; Winqvist, Robert; Wolk, Alicja; Wu, Anna H.; Xia, Lucy; Yamaji, Taiki; Yang, Xiaohong R.; Yip, Cheng Har; Yoo, Keun-Young; Yu, Jyh-Cherng; Zheng, Wei; Zheng, Ying; Zhu, Bin; Ziogas, Argyrios; Ziv, Elad; Lakhani, Sunil R.; Antoniou, Antonis C.; Droit, Arnaud; Andrulis, Irene L.; Amos, Christopher I.; Couch, Fergus J.; Pharoah, Paul D.P.; Chang-Claude, Jenny; Hall, Per; Hunter, David J.; Milne, Roger L.; García-Closas, Montserrat; Schmidt, Marjanka K.; Chanock, Stephen J.; Dunning, Alison M.; Edwards, Stacey L.; Bader, Gary D.; Chenevix-Trench, Georgia; Simard, Jacques; Kraft, Peter; Easton, Douglas F.

2017-01-01

Breast cancer risk is influenced by rare coding variants in susceptibility genes such as BRCA1 and many common, mainly non-coding variants. However, much of the genetic contribution to breast cancer risk remains unknown. We report results from a genome-wide association study (GWAS) of breast cancer in 122,977 cases and 105,974 controls of European ancestry and 14,068 cases and 13,104 controls of East Asian ancestry1. We identified 65 new loci associated with overall breast cancer at pcancer due to all SNPs in regulatory features was 2-5-fold enriched relative to the genome-wide average, with strong enrichment for particular transcription factor binding sites. These results provide further insight into genetic susceptibility to breast cancer and will improve the utility of genetic risk scores for individualized screening and prevention. PMID:29059683

Association analysis identifies 65 new breast cancer risk loci

DEFF Research Database (Denmark)

Michailidou, Kyriaki; Lindström, Sara; Dennis, Joe

2017-01-01

Breast cancer risk is influenced by rare coding variants in susceptibility genes, such as BRCA1, and many common, mostly non-coding variants. However, much of the genetic contribution to breast cancer risk remains unknown. Here we report the results of a genome-wide association study of breast...... cancer in 122,977 cases and 105,974 controls of European ancestry and 14,068 cases and 13,104 controls of East Asian ancestry. We identified 65 new loci that are associated with overall breast cancer risk at P risk single-nucleotide polymorphisms in these loci fall......-nucleotide polymorphisms in regulatory features was 2-5-fold enriched relative to the genome-wide average, with strong enrichment for particular transcription factor binding sites. These results provide further insight into genetic susceptibility to breast cancer and will improve the use of genetic risk scores...

Loci associated with skin pigmentation identified in African populations

Science.gov (United States)

Crawford, Nicholas G.; Kelly, Derek E.; Hansen, Matthew E. B.; Beltrame, Marcia H.; Fan, Shaohua; Bowman, Shanna L.; Jewett, Ethan; Ranciaro, Alessia; Thompson, Simon; Lo, Yancy; Pfeifer, Susanne P.; Jensen, Jeffrey D.; Campbell, Michael C.; Beggs, William; Hormozdiari, Farhad; Mpoloka, Sununguko Wata; Mokone, Gaonyadiwe George; Nyambo, Thomas; Meskel, Dawit Wolde; Belay, Gurja; Haut, Jake; Rothschild, Harriet; Zon, Leonard; Zhou, Yi; Kovacs, Michael A.; Xu, Mai; Zhang, Tongwu; Bishop, Kevin; Sinclair, Jason; Rivas, Cecilia; Elliot, Eugene; Choi, Jiyeon; Li, Shengchao A.; Hicks, Belynda; Burgess, Shawn; Abnet, Christian; Watkins-Chow, Dawn E.; Oceana, Elena; Song, Yun S.; Eskin, Eleazar; Brown, Kevin M.; Marks, Michael S.; Loftus, Stacie K.; Pavan, William J.; Yeager, Meredith; Chanock, Stephen; Tishkoff, Sarah

2017-01-01

Despite the wide range of skin pigmentation in humans, little is known about its genetic basis in global populations. Examining ethnically diverse African genomes, we identify variants in or near SLC24A5, MFSD12, DDB1, TMEM138, OCA2 and HERC2 that are significantly associated with skin pigmentation. Genetic evidence indicates that the light pigmentation variant at SLC24A5 was introduced into East Africa by gene flow from non-Africans. At all other loci, variants associated with dark pigmentation in Africans are identical by descent in southern Asian and Australo-Melanesian populations. Functional analyses indicate that MFSD12 encodes a lysosomal protein that affects melanogenesis in zebrafish and mice, and that mutations in melanocyte-specific regulatory regions near DDB1/TMEM138 correlate with expression of UV response genes under selection in Eurasians. PMID:29025994

Exome Genotyping Identifies Pleiotropic Variants Associated with Red Blood Cell Traits

NARCIS (Netherlands)

Chami, N. (Nathalie); M.-H. Chen (Ming-Huei); Slater, A.J. (Andrew J.); Eicher, J.D. (John D.); E. Evangelou (Evangelos); Tajuddin, S.M. (Salman M.); Love-Gregory, L. (Latisha); T. Kacprowski (Tim); U.M. Schick (Ursula); Nomura, A. (Akihiro); Giri, A. (Ayush); Lessard, S. (Samuel); J. Brody (Jennifer); C. Schurmann (Claudia); V.S. Pankratz (Shane); L.R. Yanek (Lisa); A. Manichaikul (Ani); R. Pazoki (Raha); E. Mihailov (Evelin); W.D. Hill (W. David); Raffield, L.M. (Laura M.); A.D. Burt (Alastair); T.M. Bartz (Traci M.); D.M. Becker (Diane); L.C. Becker (Lewis); E.A. Boerwinkle (Eric); J. Bork-Jensen (Jette); E.P. Bottinger (Erwin); M.L. O'Donoghue (Michelle L.); D.R. Crosslin (David); de Denus, S. (Simon); Dubé, M.-P. (Marie-Pierre); P. Elliott (Paul); G. Engström; M. Evans (Michele); J. Floyd (James); M. Fornage (Myriam); Gao, H. (He); A. Greinacher (Andreas); V. Gudnason (Vilmundur); T. Hansen (T.); T.B. Harris (Tamara); C. Hayward (Caroline); Hernesniemi, J. (Jussi); H. Highland (Heather); J.N. Hirschhorn (Joel); Hofman, A. (Albert); Irvin, M.R. (Marguerite R.); M. Kähönen (Mika); E.M. Lange (Ethan); Launer, L.J. (Lenore J.); T. Lehtimäki (Terho); Li, J. (Jin); D.C. Liewald (David C.); A. Linneberg (Allan); Y. Liu (YongMei); Y. Lu (Yingchang); L.-P. Lyytikäinen (Leo-Pekka); R. Mägi (Reedik); J. Mathias (Jasmine); O. Melander (Olle); A. Metspalu (Andres); K. Mononen (Kari); M.A. Nalls (Michael); D.A. Nickerson (Deborah); K. Nikus (Kjell); C.J. O'Donnell (Christopher); M. Orho-Melander (Marju); O. Pedersen (Oluf); A. Petersmann (Astrid); Polfus, L. (Linda); B.M. Psaty (Bruce); O.T. Raitakari (Olli T.); Raitoharju, E. (Emma); Richard, M. (Melissa); K.M. Rice (Kenneth); F. Rivadeneira Ramirez (Fernando); Rotter, J.I. (Jerome I.); Schmidt, F. (Frank); A.V. Smith (Albert Vernon); J.M. Starr (John); K.D. Taylor (Kent); A. Teumer (Alexander); Thuesen, B.H. (Betina H.); Torstenson, E.S. (Eric S.); R.P. Tracy (Russell); I. Tzoulaki; N.A. Zakai (Neil); Vacchi-Suzzi, C. (Caterina); C.M. van Duijn (Cornelia); F.J.A. van Rooij (Frank); M. Cushman (Mary Ann); I.J. Deary (Ian J.); Velez Edwards, D.R. (Digna R.); Vergnaud, A.-C. (Anne-Claire); L.C. Wallentin (Lars); D. Waterworth (Dawn); White, H.D. (Harvey D.); J.F. Wilson (James); A.B. Zonderman; S. Kathiresan (Sekar); N. Grarup (Niels); T. Esko (Tõnu); R.J.F. Loos (Ruth); L.A. Lange (Leslie); Faraday, N. (Nauder); Abumrad, N.A. (Nada A.); T.L. Edwards (Todd L.); S.K. Ganesh (Santhi); P. Auer (Paul); A.D. Johnson (Andrew); A. Reiner (Alexander); G. Lettre (Guillaume)

2016-01-01

textabstractRed blood cell (RBC) traits are important heritable clinical biomarkers and modifiers of disease severity. To identify coding genetic variants associated with these traits, we conducted meta-analyses of seven RBC phenotypes in 130,273 multi-ethnic individuals from studies genotyped on an

SoilEffects - start characterization of the experimental soil

DEFF Research Database (Denmark)

Løes, Anne-Kristin; Johansen, Anders; Pommeresche, Reidun

-14). The aim of the SoilEffects project is to identify potential risks and benefits for soil fertility when animal manure is anaerobically digested for biogas production. The field experiment was established on Tingvoll research farm in 2011. A biogas plant was built at this farm in 2010, to digest the manure...... in spring, no legumes are grown, and aboveground plant material is removed at harvest. This practice is intended to stress the maintenance of soil organic matter in the arable system, to possibly reveal clearer effects of the experimental treatments. Within each cropping system, five experimental treatments...... by ignition loss was 11.3 % in the grass and 6.6 % in the arable system. Analyzed by total-C measurements, the corresponding SOM values were 11.03 % and 5.97 %. In Norwegian soil, SOM values between 3 and 6 % are regarded as high humus contents (“moldrik”), whereas values between 6 and 12 % are regarded...

Genome-wide association scan meta-analysis identifies three Loci influencing adiposity and fat distribution.

Directory of Open Access Journals (Sweden)

Cecilia M Lindgren

2009-06-01

Full Text Available To identify genetic loci influencing central obesity and fat distribution, we performed a meta-analysis of 16 genome-wide association studies (GWAS, N = 38,580 informative for adult waist circumference (WC and waist-hip ratio (WHR. We selected 26 SNPs for follow-up, for which the evidence of association with measures of central adiposity (WC and/or WHR was strong and disproportionate to that for overall adiposity or height. Follow-up studies in a maximum of 70,689 individuals identified two loci strongly associated with measures of central adiposity; these map near TFAP2B (WC, P = 1.9x10(-11 and MSRA (WC, P = 8.9x10(-9. A third locus, near LYPLAL1, was associated with WHR in women only (P = 2.6x10(-8. The variants near TFAP2B appear to influence central adiposity through an effect on overall obesity/fat-mass, whereas LYPLAL1 displays a strong female-only association with fat distribution. By focusing on anthropometric measures of central obesity and fat distribution, we have identified three loci implicated in the regulation of human adiposity.

Soil properties related to 60Co bioavailability in tropical soils

International Nuclear Information System (INIS)

Bartoly, Flavia; Wasserman, Maria Angelica; Rochedo, Elaine Ruas Rodriguez; Viana, Aline Gonzalez; Souza, Rodrigo Camara; Oliveira, Giselle Rodrigues; Reis, Wagner Goncalves Soares; Perez, Daniel Vidal

2005-01-01

This work presents the results of field experiments to obtain soil to plants Transfer factor (TF) for 60 Co in reference plants cultivated in Ferralsol, Acrisol and Nitisol. These soils represent the majority of Brazilian agricultural area. Values of TF varied from 0.001 to 0.05 for corn and from 0.001 to 0.81 for cabbage. Results of 60 Co TF were discussed in relation to the physical and chemical properties of the soils and 60 Co geochemical partition. The sequential chemical extraction showed that more than 40% of the 60 Co present in the soils are associated to manganese oxides. These results will provide regional values for parameters used in the environmental radiological modeling aiming to optimize the planning of emergency interventions or the waste management related to tropical soils. (author)

Genome-wide association study identifies novel breast cancer susceptibility loci

Science.gov (United States)

Easton, Douglas F.; Pooley, Karen A.; Dunning, Alison M.; Pharoah, Paul D. P.; Thompson, Deborah; Ballinger, Dennis G.; Struewing, Jeffery P.; Morrison, Jonathan; Field, Helen; Luben, Robert; Wareham, Nicholas; Ahmed, Shahana; Healey, Catherine S.; Bowman, Richard; Meyer, Kerstin B.; Haiman, Christopher A.; Kolonel, Laurence K.; Henderson, Brian E.; Marchand, Loic Le; Brennan, Paul; Sangrajrang, Suleeporn; Gaborieau, Valerie; Odefrey, Fabrice; Shen, Chen-Yang; Wu, Pei-Ei; Wang, Hui-Chun; Eccles, Diana; Evans, D. Gareth; Peto, Julian; Fletcher, Olivia; Johnson, Nichola; Seal, Sheila; Stratton, Michael R.; Rahman, Nazneen; Chenevix-Trench, Georgia; Bojesen, Stig E.; Nordestgaard, Børge G.; Axelsson, Christen K.; Garcia-Closas, Montserrat; Brinton, Louise; Chanock, Stephen; Lissowska, Jolanta; Peplonska, Beata; Nevanlinna, Heli; Fagerholm, Rainer; Eerola, Hannaleena; Kang, Daehee; Yoo, Keun-Young; Noh, Dong-Young; Ahn, Sei-Hyun; Hunter, David J.; Hankinson, Susan E.; Cox, David G.; Hall, Per; Wedren, Sara; Liu, Jianjun; Low, Yen-Ling; Bogdanova, Natalia; Schürmann, Peter; Dörk, Thilo; Tollenaar, Rob A. E. M.; Jacobi, Catharina E.; Devilee, Peter; Klijn, Jan G. M.; Sigurdson, Alice J.; Doody, Michele M.; Alexander, Bruce H.; Zhang, Jinghui; Cox, Angela; Brock, Ian W.; MacPherson, Gordon; Reed, Malcolm W. R.; Couch, Fergus J.; Goode, Ellen L.; Olson, Janet E.; Meijers-Heijboer, Hanne; van den Ouweland, Ans; Uitterlinden, André; Rivadeneira, Fernando; Milne, Roger L.; Ribas, Gloria; Gonzalez-Neira, Anna; Benitez, Javier; Hopper, John L.; McCredie, Margaret; Southey, Melissa; Giles, Graham G.; Schroen, Chris; Justenhoven, Christina; Brauch, Hiltrud; Hamann, Ute; Ko, Yon-Dschun; Spurdle, Amanda B.; Beesley, Jonathan; Chen, Xiaoqing; Mannermaa, Arto; Kosma, Veli-Matti; Kataja, Vesa; Hartikainen, Jaana; Day, Nicholas E.; Cox, David R.; Ponder, Bruce A. J.; Luccarini, Craig; Conroy, Don; Shah, Mitul; Munday, Hannah; Jordan, Clare; Perkins, Barbara; West, Judy; Redman, Karen; Driver, Kristy; Aghmesheh, Morteza; Amor, David; Andrews, Lesley; Antill, Yoland; Armes, Jane; Armitage, Shane; Arnold, Leanne; Balleine, Rosemary; Begley, Glenn; Beilby, John; Bennett, Ian; Bennett, Barbara; Berry, Geoffrey; Blackburn, Anneke; Brennan, Meagan; Brown, Melissa; Buckley, Michael; Burke, Jo; Butow, Phyllis; Byron, Keith; Callen, David; Campbell, Ian; Chenevix-Trench, Georgia; Clarke, Christine; Colley, Alison; Cotton, Dick; Cui, Jisheng; Culling, Bronwyn; Cummings, Margaret; Dawson, Sarah-Jane; Dixon, Joanne; Dobrovic, Alexander; Dudding, Tracy; Edkins, Ted; Eisenbruch, Maurice; Farshid, Gelareh; Fawcett, Susan; Field, Michael; Firgaira, Frank; Fleming, Jean; Forbes, John; Friedlander, Michael; Gaff, Clara; Gardner, Mac; Gattas, Mike; George, Peter; Giles, Graham; Gill, Grantley; Goldblatt, Jack; Greening, Sian; Grist, Scott; Haan, Eric; Harris, Marion; Hart, Stewart; Hayward, Nick; Hopper, John; Humphrey, Evelyn; Jenkins, Mark; Jones, Alison; Kefford, Rick; Kirk, Judy; Kollias, James; Kovalenko, Sergey; Lakhani, Sunil; Leary, Jennifer; Lim, Jacqueline; Lindeman, Geoff; Lipton, Lara; Lobb, Liz; Maclurcan, Mariette; Mann, Graham; Marsh, Deborah; McCredie, Margaret; McKay, Michael; McLachlan, Sue Anne; Meiser, Bettina; Milne, Roger; Mitchell, Gillian; Newman, Beth; O'Loughlin, Imelda; Osborne, Richard; Peters, Lester; Phillips, Kelly; Price, Melanie; Reeve, Jeanne; Reeve, Tony; Richards, Robert; Rinehart, Gina; Robinson, Bridget; Rudzki, Barney; Salisbury, Elizabeth; Sambrook, Joe; Saunders, Christobel; Scott, Clare; Scott, Elizabeth; Scott, Rodney; Seshadri, Ram; Shelling, Andrew; Southey, Melissa; Spurdle, Amanda; Suthers, Graeme; Taylor, Donna; Tennant, Christopher; Thorne, Heather; Townshend, Sharron; Tucker, Kathy; Tyler, Janet; Venter, Deon; Visvader, Jane; Walpole, Ian; Ward, Robin; Waring, Paul; Warner, Bev; Warren, Graham; Watson, Elizabeth; Williams, Rachael; Wilson, Judy; Winship, Ingrid; Young, Mary Ann; Bowtell, David; Green, Adele; deFazio, Anna; Chenevix-Trench, Georgia; Gertig, Dorota; Webb, Penny

2009-01-01

Breast cancer exhibits familial aggregation, consistent with variation in genetic susceptibility to the disease. Known susceptibility genes account for less than 25% of the familial risk of breast cancer, and the residual genetic variance is likely to be due to variants conferring more moderate risks. To identify further susceptibility alleles, we conducted a two-stage genome-wide association study in 4,398 breast cancer cases and 4,316 controls, followed by a third stage in which 30 single nucleotide polymorphisms (SNPs) were tested for confirmation in 21,860 cases and 22,578 controls from 22 studies. We used 227,876 SNPs that were estimated to correlate with 77% of known common SNPs in Europeans at r2>0.5. SNPs in five novel independent loci exhibited strong and consistent evidence of association with breast cancer (P<10−7). Four of these contain plausible causative genes (FGFR2, TNRC9, MAP3K1 and LSP1). At the second stage, 1,792 SNPs were significant at the P<0.05 level compared with an estimated 1,343 that would be expected by chance, indicating that many additional common susceptibility alleles may be identifiable by this approach. PMID:17529967

Effects of the Atrazine herbicide over the diazotrophic microorganisms associated with corn in a Saldana soil (Tolima)

International Nuclear Information System (INIS)

Ordonez, Alba R; Lozano de Yunda, A; Fuentes, C

1999-01-01

In this study, it was evaluated, at greenhouse in soil pots, the effect of the herbicide atrazine in different dose (corresponding to o, 0.75, 1.5 and 3.0 kg of soil hectare) over time (15, 30, 45, 60 and 90 days after the application) on the diazotrophic micro-organisms associated with rhizosphere soil and root of a corn cultivation in a clay loam soil of Saldana - Tolima. It was determined the population of diazotrophic microorganisms in soil by the most probable number technique; also it was observed the characteristic growth in the specific cultivation semisolid Nfb-malic acid medium and was evaluated the nitrogenase activity by means of the acetylene reduction technique. Of the same form, it was observed the characteristic growth and it was evaluated the nitrogenase activity of direct fragment sowings of root in the Nfb-malic acid medium. The 60.8% of soil isolates presented characteristic cultural growth in the form of whitish pellicle under the surface of the medium. in the root 83.3% showed this type of growth. The population of diazotrophic microorganisms of soil did not present significant differences (α = 0.05) between treatments neither over time the nitrogenase activity of soil dilutions demonstrated that there is no a significant effect (α = 0.05) of the treatments (dose) but if there is significant effect of the time. The highest values were presented to 45 days of application of the herbicide, with the application of the highest dose. the nitrogenase activity in the root to what is long of the time was different from rhizosphere soil. The treatment without application of atrazine presented greater values to what is long of the time, however, also in this case were not presented significant differences (α = 0.05) between the treatments (dose) neither to what is long of the time. For so much, as a conclusion, they were not presented effects on the population and the nitrogenase activity of the diazotrophic microorganisms until 90 days of after the

Common genetic variants associated with cognitive performance identified using the proxy-phenotype method

NARCIS (Netherlands)

C.A. Rietveld (Niels); T. Esko (Tõnu); G. Davies (Gail); T.H. Pers (Tune); P. Turley (Patrick); B. Benyamin (Beben); C.F. Chabris (Christopher F.); V. Emilsson (Valur); A.D. Johnson (Andrew); J.J. Lee (James J.); C. de Leeuw (Christiaan); R.E. Marioni (Riccardo); S.E. Medland (Sarah Elizabeth); M. Miller (Mike); O. Rostapshova (Olga); S.J. van der Lee (Sven); A.A.E. Vinkhuyzen (Anna A.); N. Amin (Najaf); D. Conley (Dalton); J. Derringer; C.M. van Duijn (Cornelia); R.S.N. Fehrmann (Rudolf); L. Franke (Lude); E.L. Glaeser (Edward L.); N.K. Hansell (Narelle); C. Hayward (Caroline); W.G. Iacono (William); C.A. Ibrahim-Verbaas (Carla); V.W.V. Jaddoe (Vincent); J. Karjalainen (Juha); D. Laibson (David); P. Lichtenstein (Paul); D.C. Liewald (David C.); P.K. Magnusson (Patrik); N.G. Martin (Nicholas); M. McGue (Matt); G. Mcmahon (George); N.L. Pedersen (Nancy); S. Pinker (Steven); D.J. Porteous (David J.); D. Posthuma (Danielle); F. Rivadeneira Ramirez (Fernando); B.H. Smithk (Blair H.); J.M. Starr (John); H.W. Tiemeier (Henning); N.J. Timpsonm (Nicholas J.); M. Trzaskowskin (Maciej); A.G. Uitterlinden (André); F.C. Verhulst (Frank); M.E. Ward (Mary); M.J. Wright (Margaret); G.D. Smith; I.J. Deary (Ian J.); M. Johannesson (Magnus); R. Plomin (Robert); P.M. Visscher (Peter); D.J. Benjamin (Daniel J.); D. Cesarini (David); Ph.D. Koellinger (Philipp)

2014-01-01

textabstractWe identify common genetic variants associated with cognitive performance using a two-stage approach, which we call the proxyphenotype method. First, we conduct a genome-wide association study of educational attainment in a large sample (n = 106,736), which produces a set of 69

Determination of multi-element profiles of soil using energy dispersive X-ray fluorescence (EDXRF)

International Nuclear Information System (INIS)

Yu, K.N.; Yeung, Z.L.L.; Lee, L.Y.L.; Stokes, M.J.; Kwok, R.C.W.

2002-01-01

The source profile for soil in Hong Kong is important both for determination of the main air pollutant source in Hong Kong and for assessment of the impact of Asian dust storms on Hong Kong. Soil associated with different rock types have been sampled, and the concentrations of 19 chemical elements, Na, Al, Si, Ti, V, Cr, Mn, Fe, Co, K, Ca, Ni, Cu, Zn, Pb, Rb, Sr, Y and Zr, have been determined using energy dispersive X-ray fluorescence. A profile for the average soil for Hong Kong has been determined by taking average values for the different soil categories. The values for the Hong Kong soil are commensurate with values for rural soil derived by other workers, except that Hong Kong soil has much lower Fe and Ca concentrations. The abundance of Al, Ca and Fe in the average Hong Kong soil are 9.23%, 0.11% and 0.85%. We conclude that Ca provides a good marker element for identifying dust episodes in Hong Kong while Al does not

Identifying county characteristics associated with resident well-being: A population based study.

Science.gov (United States)

Roy, Brita; Riley, Carley; Herrin, Jeph; Spatz, Erica S; Arora, Anita; Kell, Kenneth P; Welsh, John; Rula, Elizabeth Y; Krumholz, Harlan M

2018-01-01

Well-being is a positively-framed, holistic assessment of health and quality of life that is associated with longevity and better health outcomes. We aimed to identify county attributes that are independently associated with a comprehensive, multi-dimensional assessment of individual well-being. We performed a cross-sectional study examining associations between 77 pre-specified county attributes and a multi-dimensional assessment of individual US residents' well-being, captured by the Gallup-Sharecare Well-Being Index. Our cohort included 338,846 survey participants, randomly sampled from 3,118 US counties or county equivalents. We identified twelve county-level factors that were independently associated with individual well-being scores. Together, these twelve factors explained 91% of the variance in individual well-being scores, and they represent four conceptually distinct categories: demographic (% black); social and economic (child poverty, education level [divorced); clinical care (% eligible women obtaining mammography, preventable hospital stays per 100,000, number of federally qualified health centers); and physical environment (% commuting by bicycle and by public transit). Twelve factors across social and economic, clinical care, and physical environmental county-level factors explained the majority of variation in resident well-being.

Thresholds and interactive effects of soil moisture on the temperature response of soil respiration

DEFF Research Database (Denmark)

Lellei-Kovács, Eszter; Kovács-Láng, Edit; Botta-Dukát, Zoltán

2011-01-01

efflux is soil temperature, while soil moisture has less, although significant effect on soil respiration. Clear thresholds for moisture effects on temperature sensitivity were identified at 0.6, 4.0 and 7.0vol% by almost each model, which relate well to other known limits for biological activity......Ecosystem carbon exchange is poorly understood in low-productivity, semiarid habitats. Here we studied the controls of soil temperature and moisture on soil respiration in climate change field experiment in a sandy forest-steppe. Soil CO2 efflux was measured monthly from April to November in 2003......–2008 on plots receiving either rain exclusion or nocturnal warming, or serving as ambient control. Based on this dataset, we developed and compared empirical models of temperature and moisture effects on soil respiration. Results suggest that in this semiarid ecosystem the main controlling factor for soil CO2...

Functional and Structural Succession of Soil Microbial Communities below Decomposing Human Cadavers

Science.gov (United States)

Cobaugh, Kelly L.; Schaeffer, Sean M.; DeBruyn, Jennifer M.

2015-01-01

The ecological succession of microbes during cadaver decomposition has garnered interest in both basic and applied research contexts (e.g. community assembly and dynamics; forensic indicator of time since death). Yet current understanding of microbial ecology during decomposition is almost entirely based on plant litter. We know very little about microbes recycling carcass-derived organic matter despite the unique decomposition processes. Our objective was to quantify the taxonomic and functional succession of microbial populations in soils below decomposing cadavers, testing the hypotheses that a) periods of increased activity during decomposition are associated with particular taxa; and b) human-associated taxa are introduced to soils, but do not persist outside their host. We collected soils from beneath four cadavers throughout decomposition, and analyzed soil chemistry, microbial activity and bacterial community structure. As expected, decomposition resulted in pulses of soil C and nutrients (particularly ammonia) and stimulated microbial activity. There was no change in total bacterial abundances, however we observed distinct changes in both function and community composition. During active decay (7 - 12 days postmortem), respiration and biomass production rates were high: the community was dominated by Proteobacteria (increased from 15.0 to 26.1% relative abundance) and Firmicutes (increased from 1.0 to 29.0%), with reduced Acidobacteria abundances (decreased from 30.4 to 9.8%). Once decay rates slowed (10 - 23 d postmortem), respiration was elevated, but biomass production rates dropped dramatically; this community with low growth efficiency was dominated by Firmicutes (increased to 50.9%) and other anaerobic taxa. Human-associated bacteria, including the obligately anaerobic Bacteroides, were detected at high concentrations in soil throughout decomposition, up to 198 d postmortem. Our results revealed the pattern of functional and compositional succession

Predictor variable resolution governs modeled soil types

Science.gov (United States)

Soil mapping identifies different soil types by compressing a unique suite of spatial patterns and processes across multiple spatial scales. It can be quite difficult to quantify spatial patterns of soil properties with remotely sensed predictor variables. More specifically, matching the right scale...

Phytoremediation of Polycyclic Aromatic Hydrocarbons in Soils Artificially Polluted Using Plant-Associated-Endophytic Bacteria and Dactylis glomerata as the Bioremediation Plant.

Science.gov (United States)

Gałązka, Ann; Gałązka, Rafał

2015-01-01

The reaction of soil microorganisms to the contamination of soil artificially polluted with polycyclic aromatic hydrocarbons (PAHs) was evaluated in pot experiments. The plant used in the tests was cock's foot (Dactylis glomerata). Three different soils artificially contaminated with PAHs were applied in the studies. Three selected PAHs (anthracene, phenanthrene, and pyrene) were used at the doses of 100, 500, and 1000 mg/kg d.m. of soil and diesel fuel at the doses of 100, 500, and 1000 mg/kg d.m. of soil. For evaluation of the synergistic effect of nitrogen fixing bacteria, the following strains were selected: associative Azospirillum spp. and Pseudomonas stutzerii. Additionally, in the bioremediation process, the inoculation of plants with a mixture of the bacterial strains in the amount of 1 ml suspension per 500 g of soil was used. Chamber pot-tests were carried out in controlled conditions during four weeks of plant growth period. The basic physical, microbiological and biochemical properties in contaminated soils were determined. The obtained results showed a statistically important increase in the physical properties of soils polluted with PAHs and diesel fuel compared with the control and also an important decrease in the content of PAHs and heavy metals in soils inoculated with Azospirillum spp. and P. stutzeri after cock's foot grass growth. The bioremediation processes were especially intensive in calcareous rendzina soil artificially polluted with PAHs.

Large-scale association analysis identifies 13 new susceptibility loci for coronary artery disease

NARCIS (Netherlands)

Schunkert, Heribert; König, Inke R.; Kathiresan, Sekar; Reilly, Muredach P.; Assimes, Themistocles L.; Holm, Hilma; Preuss, Michael; Stewart, Alexandre F. R.; Barbalic, Maja; Gieger, Christian; Absher, Devin; Aherrahrou, Zouhair; Allayee, Hooman; Altshuler, David; Anand, Sonia S.; Andersen, Karl; Anderson, Jeffrey L.; Ardissino, Diego; Ball, Stephen G.; Balmforth, Anthony J.; Barnes, Timothy A.; Becker, Diane M.; Becker, Lewis C.; Berger, Klaus; Bis, Joshua C.; Boekholdt, S. Matthijs; Boerwinkle, Eric; Braund, Peter S.; Brown, Morris J.; Burnett, Mary Susan; Buysschaert, Ian; Carlquist, John F.; Chen, Li; Cichon, Sven; Codd, Veryan; Davies, Robert W.; Dedoussis, George; Dehghan, Abbas; Demissie, Serkalem; Devaney, Joseph M.; Diemert, Patrick; Do, Ron; Doering, Angela; Eifert, Sandra; Mokhtari, Nour Eddine El; Ellis, Stephen G.; Elosua, Roberto; Engert, James C.; Epstein, Stephen E.; de Faire, Ulf; Fischer, Marcus; Folsom, Aaron R.; Freyer, Jennifer; Gigante, Bruna; Girelli, Domenico; Gretarsdottir, Solveig; Gudnason, Vilmundur; Gulcher, Jeffrey R.; Halperin, Eran; Hammond, Naomi; Hazen, Stanley L.; Hofman, Albert; Horne, Benjamin D.; Illig, Thomas; Iribarren, Carlos; Jones, Gregory T.; Jukema, J. Wouter; Kaiser, Michael A.; Kaplan, Lee M.; Kastelein, John J. P.; Khaw, Kay-Tee; Knowles, Joshua W.; Kolovou, Genovefa; Kong, Augustine; Laaksonen, Reijo; Lambrechts, Diether; Leander, Karin; Lettre, Guillaume; Li, Mingyao; Lieb, Wolfgang; Loley, Christina; Lotery, Andrew J.; Mannucci, Pier M.; Maouche, Seraya; Martinelli, Nicola; McKeown, Pascal P.; Meisinger, Christa; Meitinger, Thomas; Melander, Olle; Merlini, Pier Angelica; Mooser, Vincent; Morgan, Thomas; Mühleisen, Thomas W.; Muhlestein, Joseph B.; Münzel, Thomas; Musunuru, Kiran; Nahrstaedt, Janja; Nelson, Christopher P.; Nöthen, Markus M.; Olivieri, Oliviero; Patel, Riyaz S.; Patterson, Chris C.; Peters, Annette; Peyvandi, Flora; Qu, Liming; Quyyumi, Arshed A.; Rader, Daniel J.; Rallidis, Loukianos S.; Rice, Catherine; Rosendaal, Frits R.; Rubin, Diana; Salomaa, Veikko; Sampietro, M. Lourdes; Sandhu, Manj S.; Schadt, Eric; Schäfer, Arne; Schillert, Arne; Schreiber, Stefan; Schrezenmeir, Jürgen; Schwartz, Stephen M.; Siscovick, David S.; Sivananthan, Mohan; Sivapalaratnam, Suthesh; Smith, Albert; Smith, Tamara B.; Snoep, Jaapjan D.; Soranzo, Nicole; Spertus, John A.; Stark, Klaus; Stirrups, Kathy; Stoll, Monika; Tang, W. H. Wilson; Tennstedt, Stephanie; Thorgeirsson, Gudmundur; Thorleifsson, Gudmar; Tomaszewski, Maciej; Uitterlinden, Andre G.; van Rij, Andre M.; Voight, Benjamin F.; Wareham, Nick J.; Wells, George A.; Wichmann, H.-Erich; Wild, Philipp S.; Willenborg, Christina; Witteman, Jaqueline C. M.; Wright, Benjamin J.; Ye, Shu; Zeller, Tanja; Ziegler, Andreas; Cambien, Francois; Goodall, Alison H.; Cupples, L. Adrienne; Quertermous, Thomas; März, Winfried; Hengstenberg, Christian; Blankenberg, Stefan; Ouwehand, Willem H.; Hall, Alistair S.; Deloukas, Panos; Thompson, John R.; Stefansson, Kari; Roberts, Robert; Thorsteinsdottir, Unnur; O'Donnell, Christopher J.; McPherson, Ruth; Erdmann, Jeanette; Samani, Nilesh J.

2011-01-01

We performed a meta-analysis of 14 genome-wide association studies of coronary artery disease (CAD) comprising 22,233 individuals with CAD (cases) and 64,762 controls of European descent followed by genotyping of top association signals in 56,682 additional individuals. This analysis identified 13

Impacts of soil moisture content on visual soil evaluation

Science.gov (United States)

Emmet-Booth, Jeremy; Forristal, Dermot; Fenton, Owen; Bondi, Giulia; Creamer, Rachel; Holden, Nick

2017-04-01

Visual Soil Examination and Evaluation (VSE) techniques offer tools for soil quality assessment. They involve the visual and tactile assessment of soil properties such as aggregate size and shape, porosity, redox morphology, soil colour and smell. An increasing body of research has demonstrated the reliability and utility of VSE techniques. However a number of limitations have been identified, including the potential impact of soil moisture variation during sampling. As part of a national survey of grassland soil quality in Ireland, an evaluation of the impact of soil moisture on two widely used VSE techniques was conducted. The techniques were Visual Evaluation of Soil Structure (VESS) (Guimarães et al., 2011) and Visual Soil Assessment (VSA) (Shepherd, 2009). Both generate summarising numeric scores that indicate soil structural quality, though employ different scoring mechanisms. The former requires the assessment of properties concurrently and the latter separately. Both methods were deployed on 20 sites across Ireland representing a range of soils. Additional samples were taken for soil volumetric water (θ) determination at 5-10 and 10-20 cm depth. No significant correlation was observed between θ 5-10 cm and either VSE technique. However, VESS scores were significantly related to θ 10-20 cm (rs = 0.40, sig = 0.02) while VSA scores were not (rs = -0.33, sig = 0.06). VESS and VSA scores can be grouped into quality classifications (good, moderate and poor). No significant mean difference was observed between θ 5-10 cm or θ 10-20 cm according to quality classification by either method. It was concluded that VESS scores may be affected by soil moisture variation while VSA appear unaffected. The different scoring mechanisms, where the separate assessment and scoring of individual properties employed by VSA, may limit soil moisture effects. However, moisture content appears not to affect overall structural quality classification by either method. References

Bacteria Associated to Plants Naturally Selected in a Historical PCB Polluted Soil Show Potential to Sustain Natural Attenuation

KAUST Repository

Vergani, Lorenzo; Mapelli, Francesca; Marasco, Ramona; Crotti, Elena; Fusi, Marco; Di Guardo, Antonio; Armiraglio, Stefano; Daffonchio, Daniele; Borin, Sara

2017-01-01

The exploitation of the association between plants and microorganisms is a promising approach able to boost natural attenuation processes for soil clean-up in vast polluted areas characterized by mixed chemical contamination. We aimed to explore

ROMANIAN SOIL RESOURCES - “HEALTHY SOILS FOR A HEALTHY LIFE”

Directory of Open Access Journals (Sweden)

Mircea MIHALACHE

2015-10-01

Full Text Available After nearly three years of intensive consultations, 2015 has been declared the International Year of Soils by the 68th UN General Assembly (A/RES/68/232. The International Years of Soil is to be a major platform for raising awareness of the importance of soils for food security and nutrition and essential eco-system functions. Key objectives of the International Years of Soil have been identified as follows: to create full awareness of all stakeholders about the fundamental roles of soils for human life; to achieve full recognition of the prominent contributions of soils to food security and nutrition, climate change adaptation and mitigation, essential ecosystem services, poverty alleviation and sustainable development; to promote effective policies and actions for the sustainable management and protection of soil resources; to sensitize decision-makers about the need for robust investment in sustainable soil management activities, to ensure healthy soils for different land users and population groups; to catalyze initiatives in connection with the Sustainable Development Goal process and Post-2015 agenda; to advocate rapid enhancement of capacities and systems for soil information collection and monitoring at all levels (global, regional and national (http://www.fao.org/soils-2015. Applying a proper management of the recovery and conservation of soil resources is a major goal for every nation. The development of a country depends on the production potential of own soil resources. Soil degradation is a serious problem in Europe an also in Romania. It is caused or exacerbated by human activity such as inadequate agricultural and forestry practices, industrial activities, tourism, urban and industrial expansion etc. Soil Quality Monitoring in Romania revealed a number of problems concerning land use in Romania following the manifestation of one or more limiting factors such as: moisture deficit, salinization and alkalization, soil erosion

Identifying and exploiting trait-relevant tissues with multiple functional annotations in genome-wide association studies

Science.gov (United States)

Zhang, Shujun

2018-01-01

Genome-wide association studies (GWASs) have identified many disease associated loci, the majority of which have unknown biological functions. Understanding the mechanism underlying trait associations requires identifying trait-relevant tissues and investigating associations in a trait-specific fashion. Here, we extend the widely used linear mixed model to incorporate multiple SNP functional annotations from omics studies with GWAS summary statistics to facilitate the identification of trait-relevant tissues, with which to further construct powerful association tests. Specifically, we rely on a generalized estimating equation based algorithm for parameter inference, a mixture modeling framework for trait-tissue relevance classification, and a weighted sequence kernel association test constructed based on the identified trait-relevant tissues for powerful association analysis. We refer to our analytic procedure as the Scalable Multiple Annotation integration for trait-Relevant Tissue identification and usage (SMART). With extensive simulations, we show how our method can make use of multiple complementary annotations to improve the accuracy for identifying trait-relevant tissues. In addition, our procedure allows us to make use of the inferred trait-relevant tissues, for the first time, to construct more powerful SNP set tests. We apply our method for an in-depth analysis of 43 traits from 28 GWASs using tissue-specific annotations in 105 tissues derived from ENCODE and Roadmap. Our results reveal new trait-tissue relevance, pinpoint important annotations that are informative of trait-tissue relationship, and illustrate how we can use the inferred trait-relevant tissues to construct more powerful association tests in the Wellcome trust case control consortium study. PMID:29377896

Identifying and exploiting trait-relevant tissues with multiple functional annotations in genome-wide association studies.

Directory of Open Access Journals (Sweden)

Xingjie Hao

2018-01-01

Full Text Available Genome-wide association studies (GWASs have identified many disease associated loci, the majority of which have unknown biological functions. Understanding the mechanism underlying trait associations requires identifying trait-relevant tissues and investigating associations in a trait-specific fashion. Here, we extend the widely used linear mixed model to incorporate multiple SNP functional annotations from omics studies with GWAS summary statistics to facilitate the identification of trait-relevant tissues, with which to further construct powerful association tests. Specifically, we rely on a generalized estimating equation based algorithm for parameter inference, a mixture modeling framework for trait-tissue relevance classification, and a weighted sequence kernel association test constructed based on the identified trait-relevant tissues for powerful association analysis. We refer to our analytic procedure as the Scalable Multiple Annotation integration for trait-Relevant Tissue identification and usage (SMART. With extensive simulations, we show how our method can make use of multiple complementary annotations to improve the accuracy for identifying trait-relevant tissues. In addition, our procedure allows us to make use of the inferred trait-relevant tissues, for the first time, to construct more powerful SNP set tests. We apply our method for an in-depth analysis of 43 traits from 28 GWASs using tissue-specific annotations in 105 tissues derived from ENCODE and Roadmap. Our results reveal new trait-tissue relevance, pinpoint important annotations that are informative of trait-tissue relationship, and illustrate how we can use the inferred trait-relevant tissues to construct more powerful association tests in the Wellcome trust case control consortium study.

To Be or Not to Be Associated: Power study of four statistical modeling approaches to identify parasite associations in cross-sectional studies

Directory of Open Access Journals (Sweden)

Elise eVaumourin

2014-05-01

Full Text Available A growing number of studies are reporting simultaneous infections by parasites in many different hosts. The detection of whether these parasites are significantly associated is important in medicine and epidemiology. Numerous approaches to detect associations are available, but only a few provide statistical tests. Furthermore, they generally test for an overall detection of association and do not identify which parasite is associated with which other one. Here, we developed a new approach, the association screening approach, to detect the overall and the detail of multi-parasite associations. We studied the power of this new approach and of three other known ones (i.e. the generalized chi-square, the network and the multinomial GLM approaches to identify parasite associations either due to parasite interactions or to confounding factors. We applied these four approaches to detect associations within two populations of multi-infected hosts: 1 rodents infected with Bartonella sp., Babesia microti and Anaplasma phagocytophilum and 2 bovine population infected with Theileria sp. and Babesia sp.. We found that the best power is obtained with the screening model and the generalized chi-square test. The differentiation between associations, which are due to confounding factors and parasite interactions was not possible. The screening approach significantly identified associations between Bartonella doshiae and B. microti, and between T. parva, T. mutans and T. velifera. Thus, the screening approach was relevant to test the overall presence of parasite associations and identify the parasite combinations that are significantly over- or under-represented. Unravelling whether the associations are due to real biological interactions or confounding factors should be further investigated. Nevertheless, in the age of genomics and the advent of new technologies, it is a considerable asset to speed up researches focusing on the mechanisms driving interactions

Identifying factors associated with the discharge of male State patients from Weskoppies Hospital

Directory of Open Access Journals (Sweden)

Riaan G. Prinsloo

2017-12-01

Full Text Available Background: Designated psychiatric facilities are responsible for the care, treatment and reintegration of State patients. The necessary long-term care places a considerable strain on health-care resources. Resource use should be optimised while managing the risks that patients pose to themselves and the community. Identifying unique factors associated with earlier discharge may decrease the length of stay. Factors associated with protracted inpatient care without discharge could identify patients who require early and urgent intervention. Aim: We identify socio-economic, demographic, psychiatric and charge-related factors associated with the discharge of male State patients. Methods: We reviewed the files of discharged and admitted forensic State patients at Weskoppies Psychiatric Hospital. Data were captured in an electronic recording sheet. The association between factors and the outcome measure (discharged vs. admitted was determined using chi-squared tests and Fischer’s exact tests. Results: Discharged State patients were associated with being a primary caregiver (p = 0.031 having good insight into illness (p = 0.025 or offence (p = 0.005 and having had multiple successful leaves of absences. A lack of substance abuse during admission (p = 0.027, an absence of a diagnosis of substance use disorder (p = 0.013 and the absence of verbal and physical aggression (p = 0.002 and p = 0.016 were associated with being discharged. Prolonged total length of stay (9–12 years, p = 0.031 and prolonged length of stay in open wards (6–9 years, p = 0.000 were associated with being discharged. A history of previous offences (p = 0.022, a diagnosis of substance use disorder (p = 0.023, recent substance abuse (p = 0.018 and a history of physical aggression since admission (p = 0.017 were associated with continued admission. Conclusion: Discharge of State patients is associated with an absence of substance abuse, lack of aggression

Effects of past copper contamination and soil structure on copper leaching from soil

DEFF Research Database (Denmark)

Paradelo, M; Møldrup, Per; Arthur, Emmanuel

2013-01-01

Copper contamination affects biological, chemical, and physical soil properties and associated ecological functions. Changes in soil pore organization as a result of Cu contamination can dramatically affect flow and contaminant transport in polluted soils. This study assessed the influence of soil...... structure on the movement of water and Cu in a long-term polluted soil. Undisturbed soil cores collected along a Cu gradient (from about 20 to about 3800 mg Cu kg−1 soil) were scanned using X-ray computed tomography (CT). Leaching experiments were performed to analyze tracer transport, colloid leaching......, and dissolved organic carbon (DOC) and Cu losses. The 5% arrival time (t0.05) and apparent dispersivity (λapp) for tracer breakthrough were calculated by fitting the experimental data to a nonparametric, double-lognormal probability density function. Soil bulk density, which did not follow the Cu gradient...

Arsenic in the soils of Zimapan, Mexico

Energy Technology Data Exchange (ETDEWEB)

Ongley, Lois K. [Oak Hill High School, P.O. Box 400, Sabattus, ME 04280 (United States)]. E-mail: loisongley@earthlink.net; Sherman, Leslie [Department of Chemistry, Washington College, 300 Washington Avenue, Chestertown, MD 21620 (United States); Armienta, Aurora [Instituto de Geofisica, UNAM, Mexico D.F. 04510 (Mexico); Concilio, Amy [Department of Earth, Ecological, and Environmental Sciences, University of Toledo, Toledo, OH 43606 (United States); Salinas, Carrie Ferguson [Department of Agronomy and Environmental Management, Louisiana State University, Baton Rouge, LA 70803 (United States)

2007-02-15

Arsenic concentrations of 73 soil samples collected in the semi-arid Zimapan Valley range from 4 to 14 700 mg As kg{sup -1}. Soil arsenic concentrations decrease with distance from mines and tailings and slag heaps and exceed 400 mg kg{sup -1} only within 500 m of these arsenic sources. Soil arsenic concentrations correlate positively with Cu, Pb, and Zn concentrations, suggesting a strong association with ore minerals known to exist in the region. Some As was associated with Fe and Mn oxyhydroxides, this association is less for contaminated than for uncontaminated samples. Very little As was found in the mobile water-soluble or exchangeable fractions. The soils are not arsenic contaminated at depths greater than 100 cm below the surface. Although much of the arsenic in the soils is associated with relatively immobile solid phases, this represents a long-term source of arsenic to the environment. -- Much of the arsenic is relatively immobile but presents long-term source of arsenic.

Arsenic in the soils of Zimapan, Mexico

International Nuclear Information System (INIS)

Ongley, Lois K.; Sherman, Leslie; Armienta, Aurora; Concilio, Amy; Salinas, Carrie Ferguson

2007-01-01

Arsenic concentrations of 73 soil samples collected in the semi-arid Zimapan Valley range from 4 to 14 700 mg As kg -1 . Soil arsenic concentrations decrease with distance from mines and tailings and slag heaps and exceed 400 mg kg -1 only within 500 m of these arsenic sources. Soil arsenic concentrations correlate positively with Cu, Pb, and Zn concentrations, suggesting a strong association with ore minerals known to exist in the region. Some As was associated with Fe and Mn oxyhydroxides, this association is less for contaminated than for uncontaminated samples. Very little As was found in the mobile water-soluble or exchangeable fractions. The soils are not arsenic contaminated at depths greater than 100 cm below the surface. Although much of the arsenic in the soils is associated with relatively immobile solid phases, this represents a long-term source of arsenic to the environment. -- Much of the arsenic is relatively immobile but presents long-term source of arsenic

The potentiation of zinc toxicity by soil moisture in a boreal forest ecosystem.

Science.gov (United States)

Owojori, Olugbenga J; Siciliano, Steven D

2015-03-01

Northern boreal forests often experience forest dieback as a result of metal ore mining and smelting. The common solution is to lime the soil, which increases pH, reducing metal toxicity and encouraging recovery. In certain situations, however, such as in Flin Flon, Manitoba, Canada, liming has yielded only moderate benefits, with some locations responding well to liming and other locations not at all. In an effort to increase the effectiveness of the ecorestoration strategy, the authors investigated if these differences in liming responsiveness were linked to differences in toxicity. Toxicity of metal-impacted Flin Flon soils on the oribatid mite Oppia nitens and the collembolan Folsomia candida was assessed, with a view toward identifying the metal of concern in the area. The effects of moisture content on metal sorption, uptake, and toxicity to the invertebrates were also investigated. Toxicity tests with the invertebrates were conducted using either Flin Flon soils or artificial soils with moisture content adjusted to 30%, 45%, 60%, or 75% of the maximum water-holding capacity of the soil samples. The Relative to Cd Toxicity Model identified Zn as the metal of concern in the area, and this was confirmed using validation tests with field contaminated soils. Furthermore, increasing the moisture content in soils increased the amount of mobile Zn available for uptake with the ion exchange resin. Survival and reproduction of both invertebrates were reduced under Zn exposure as moisture level increased. Thus, moisture-collecting landforms, which are often also associated with high Zn concentrations at Flin Flon, have, as a result, higher Zn toxicity to the soil ecosystem because of increases in soil moisture. © 2014 SETAC.

Predicting of soil erosion with regarding to rainfall erosivity and soil erodibility

Science.gov (United States)

Suif, Zuliziana; Razak, Mohd Amirun Anis Ab; Ahmad, Nordila

2018-02-01

The soil along the hill and slope are wearing away due to erosion and it can take place due to occurrence of weak and heavy rainfall. The aim of this study is to predict the soil erosion degree in Universiti Pertahanan Nasional Malaysia (UPNM) area focused on two major factor which is soil erodibility and rainfall erosivity. Soil erodibility is the possibilities of soil to detach and carried away during rainfall and runoff. The "ROM" scale was used in this study to determine the degree of soil erodibility, namely low, moderate, high, and very high. As for rainfall erosivity, the erosive power caused by rainfall that cause soil loss. A daily rainfall data collected from January to April was analyzed by using ROSE index classification to identify the potential risk of soil erosion. The result shows that the soil erodibilty are moderate at MTD`s hill, high at behind of block Lestari and Landslide MTD hill, and critical at behind the mess cadet. While, the highest rainfall erosivity was recorded in March and April. Overall, this study would benefit the organization greatly in saving cost in landslide protection as relevant authorities can take early measures repairing the most affected area of soil erosion.

Manure-amended soil characteristics affecting the survival of E. coli O157:H7 in 36 Dutch soils.

Science.gov (United States)

Franz, Eelco; Semenov, Alexander V; Termorshuizen, Aad J; de Vos, O J; Bokhorst, Jan G; van Bruggen, Ariena H C

2008-02-01

The recent increase in foodborne disease associated with the consumption of fresh vegetables stresses the importance of the development of intervention strategies that minimize the risk of preharvest contamination. To identify risk factors for Escherichia coli O157:H7 persistence in soil, we studied the survival of a Shiga-toxin-deficient mutant in a set of 36 Dutch arable manure-amended soils (organic/conventional, sand/loam) and measured an array of biotic and abiotic manure-amended soil characteristics. The Weibull model, which is the cumulative form of the underlying distribution of individual inactivation kinetics, proved to be a suitable model for describing the decline of E. coli O157:H7. The survival curves generally showed a concave curvature, indicating changes in biological stress over time. The calculated time to reach the detection limit ttd ranged from 54 to 105 days, and the variability followed a logistic distribution. Due to large variation among soils of each management type, no differences were observed between organic and conventional soils. Although the initial decline was faster in sandy soils, no significant differences were observed in ttd between both sandy and loamy soils. With sandy, loamy and conventional soils, the variation in ttd was best explained by the level of dissolved organic carbon per unit biomass carbon DOC/biomC, with prolonged survival at increasing DOC/biomC. With organic soils, the variation in ttd was best explained by the level of dissolved organic nitrogen (positive relation) and the microbial species diversity as determined by denaturing gradient gel electrophoresis (negative relation). Survival increased with a field history of low-quality manure (artificial fertilizer and slurry) compared with high-quality manure application (farmyard manure and compost). We conclude that E. coli O157:H7 populations decline faster under more oligotrophic soil conditions, which can be achieved by the use of organic fertilizer with a

Genome-wide association study identifies candidate genes for starch content regulation in maize kernels

Directory of Open Access Journals (Sweden)

Na Liu

2016-07-01

Full Text Available Kernel starch content is an important trait in maize (Zea mays L. as it accounts for 65% to 75% of the dry kernel weight and positively correlates with seed yield. A number of starch synthesis-related genes have been identified in maize in recent years. However, many loci underlying variation in starch content among maize inbred lines still remain to be identified. The current study is a genome-wide association study that used a set of 263 maize inbred lines. In this panel, the average kernel starch content was 66.99%, ranging from 60.60% to 71.58% over the three study years. These inbred lines were genotyped with the SNP50 BeadChip maize array, which is comprised of 56,110 evenly spaced, random SNPs. Population structure was controlled by a mixed linear model (MLM as implemented in the software package TASSEL. After the statistical analyses, four SNPs were identified as significantly associated with starch content (P ≤ 0.0001, among which one each are located on chromosomes 1 and 5 and two are on chromosome 2. Furthermore, 77 candidate genes associated with starch synthesis were found within the 100-kb intervals containing these four QTLs, and four highly associated genes were within 20-kb intervals of the associated SNPs. Among the four genes, Glucose-1-phosphate adenylyltransferase (APS1; Gene ID GRMZM2G163437 is known as an important regulator of kernel starch content. The identified SNPs, QTLs, and candidate genes may not only be readily used for germplasm improvement by marker-assisted selection in breeding, but can also elucidate the genetic basis of starch content. Further studies on these identified candidate genes may help determine the molecular mechanisms regulating kernel starch content in maize and other important cereal crops.

Plutonium uptake by common soil aerobes

International Nuclear Information System (INIS)

John, Seth; Rugglero, Christy; Hersman, Larry; Neu, Mary

2000-01-01

Radionuclide contamination in soils and groundwater poses a risk to both human and environmental health. The DOE has identified 12 sites with significant U contamination in the soils and ground water, and 10 sites with Pu contamination.1 It is important to study the interactions of common soil microbes with these radionuclides both to understand the environmental fate of these contaminants and to evaluate the potential of biological techniques to remediate contaminated soils and water

Genome-wide Association Study Identifies New Loci for Resistance to Leptosphaeria maculans in Canola

Directory of Open Access Journals (Sweden)

Harsh Raman

2016-10-01

Full Text Available Blackleg, caused by Leptosphaeria maculans, is a significant disease which affects the sustainable production of canola. This study reports a genome-wide association study based on 18,804 polymorphic SNPs to identify loci associated with qualitative and quantitative resistance to L. maculans. Genomic regions delimited with 503 significant SNP markers, that are associated with resistance evaluated using 12 single spore isolates and pathotypes from four canola stubble were identified. Several significant associations were detected at known disease resistance loci including in the vicinity of recently cloned Rlm2/LepR3 genes, and at new loci on chromosomes A01/C01, A02/C02, A03/C03, A05/C05, A06, A08, and A09. In addition, we validated statistically significant associations on A01, A07 and A10 in four genetic mapping populations, demonstrating that GWAS marker loci are indeed associated with resistance to L. maculans. One of the novel loci identified for the first time, Rlm12, conveys adult plant resistance and mapped within 13.2 kb from Arabidopsis R gene of TIR-NBS class. We showed that resistance loci are located in the vicinity of R genes of A. thaliana and B. napus on the sequenced genome of B. napus cv. Darmor-bzh. Significantly associated SNP markers provide a valuable tool to enrich germplasm for favorable alleles in order to improve the level of resistance to L. maculans in canola.

Effects of soil management practices on soil fauna feeding activity in an Indonesian oil palm plantation

OpenAIRE

Tao, Hsiao-Hang; Slade, Eleanor M.; Willis, Katherine J.; Caliman, Jean Pierre; Snaddon, Jake Lanion

2016-01-01

Optimizing the use of available soil management practices in oil palm plantations is crucial to enhance long-term soil fertility and productivity. However, this needs a thorough understanding of the functional responses of soil biota to these management practices. To address this knowledge gap, we used the bait lamina method to investigate the effects of different soil management practices on soil fauna feeding activity, and whether feeding activity was associated with management-mediated cha...

An experimental study of soil temperature regimes associated with solar disinfestation techniques under greenhouse conditions in Greece.

Science.gov (United States)

Garofalakis, I; Tsiros, I; Frangoudakis, A; Chronopoulos, K; Flouri, F

2006-01-01

This paper deals with an experimental study of various techniques that have been applied for soil disinfestation purposes under greenhouse conditions. Various meteorological parameters and soil temperatures were measured for four different experimental soil segments (three associated with different disinfestation techniques and one as a reference) at depths varying between 0-1 m and with a time interval of 5 min in a greenhouse located in the Agricultural University of Athens Campus, Greece. Results showed that plastic polyethylene films such as covers, metallic conductors or a combination of both were able to enhance heat transfer and temperature increase in greenhouse soil. For typical disinfestation conditions, the depth-averaged temperature values for plastic covers, metallic conductors, and the combination of both were found to be higher than those for the reference of about 5 degrees C, 12 degrees C and 15 micro C, respectively. Moreover, the remained population percentages 50 days after the initiation of the experiment were found to be 19.3%, 25.3%, 37.3% Kcat 94% of the initial population, for the combination of metallic conductors and plastic covers, metallic conductors, plastic cover, and for the reference, respectively.

Twelve type 2 diabetes susceptibility loci identified through large-scale association analysis

OpenAIRE

Voight, Benjamin; Scott, Laura; Steinthorsdottir, Valgerdur; Morris, Andrew; Dina, Christian; Welch, Ryan; Zeggini, Eleftheria; Huth, Cornelia; Aulchenko, Yurii; Thorleifsson, Gudmar; McCulloch, Laura; Ferreira, Teresa; Grallert, Harald; Amin, Najaf; Wu, Guanming

2010-01-01

textabstractBy combining genome-wide association data from 8,130 individuals with type 2 diabetes (T2D) and 38,987 controls of European descent and following up previously unidentified meta-analysis signals in a further 34,412 cases and 59,925 controls, we identified 12 new T2D association signals with combined P 5 × 10 8. These include a second independent signal at the KCNQ1 locus; the first report, to our knowledge, of an X-chromosomal association (near DUSP9); and a further instance of ov...

The influence of organic matter on sorption and fate of glyphosate in soil - Comparing different soils and humic substances

Energy Technology Data Exchange (ETDEWEB)

Albers, Christian N., E-mail: calbers@ruc.d [Dept. of Geochemistry, Geological Survey of Denmark and Greenland, DK-1350 Copenhagen (Denmark); Dept. of Science, Systems and Models, Roskilde University, DK-4000 Roskilde (Denmark); Banta, Gary T. [Dept. of Environmental, Social and Spatial Change, Roskilde University, DK-4000 Roskilde (Denmark); Hansen, Poul Erik [Dept. of Science, Systems and Models, Roskilde University, DK-4000 Roskilde (Denmark); Jacobsen, Ole S. [Dept. of Geochemistry, Geological Survey of Denmark and Greenland, DK-1350 Copenhagen (Denmark)

2009-10-15

Soil organic matter (SOM) is generally believed not to influence the sorption of glyphosate in soil. To get a closer look on the dynamics between glyphosate and SOM, we used three approaches: I. Sorption studies with seven purified soil humic fractions showed that these could sorb glyphosate and that the aromatic content, possibly phenolic groups, seems to aid the sorption. II. Sorption studies with six whole soils and with SOM removed showed that several soil parameters including SOM are responsible for the strong sorption of glyphosate in soils. III. After an 80 day fate experiment, approx40% of the added glyphosate was associated with the humic and fulvic acid fractions in the sandy soils, while this was the case for only approx10% of the added glyphosate in the clayey soils. Glyphosate sorbed to humic substances in the natural soils seemed to be easier desorbed than glyphosate sorbed to amorphous Fe/Al-oxides. - Glyphosate was sorbed by purified humic substances and a significant amount of glyphosate was found to be associated with soil organic matter in whole soils.

The influence of organic matter on sorption and fate of glyphosate in soil - Comparing different soils and humic substances

International Nuclear Information System (INIS)

Albers, Christian N.; Banta, Gary T.; Hansen, Poul Erik; Jacobsen, Ole S.

2009-01-01

Soil organic matter (SOM) is generally believed not to influence the sorption of glyphosate in soil. To get a closer look on the dynamics between glyphosate and SOM, we used three approaches: I. Sorption studies with seven purified soil humic fractions showed that these could sorb glyphosate and that the aromatic content, possibly phenolic groups, seems to aid the sorption. II. Sorption studies with six whole soils and with SOM removed showed that several soil parameters including SOM are responsible for the strong sorption of glyphosate in soils. III. After an 80 day fate experiment, ∼40% of the added glyphosate was associated with the humic and fulvic acid fractions in the sandy soils, while this was the case for only ∼10% of the added glyphosate in the clayey soils. Glyphosate sorbed to humic substances in the natural soils seemed to be easier desorbed than glyphosate sorbed to amorphous Fe/Al-oxides. - Glyphosate was sorbed by purified humic substances and a significant amount of glyphosate was found to be associated with soil organic matter in whole soils.

Oligotyping reveals stronger relationship of organic soil bacterial community structure with N-amendments and soil chemistry in comparison to that of mineral soil at Harvard Forest, MA, USA

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Swathi Anuradha Turlapati

2015-02-01

Full Text Available The impact of chronic nitrogen amendments on bacterial communities was evaluated at Harvard Forest, Petersham MA. Thirty soil samples (3 treatments x 2 soil horizons x 5 subplots were collected in 2009 from untreated (control, low nitrogen-amended (LN; 50 kg NH4NO3 ha-1 yr-1 and high nitrogen-amended (HN; 150 kg NH4NO3 ha-1 yr-1 plots. PCR-amplified partial 16S rDNA sequences made from soil DNA were subjected to pyrosequencing (Turlapati et al., 2013 and analyses using oligotyping. The parameters M (the minimum count of the most abundant unique sequence in an oligotype and s (minimum number of samples in which an oligotype is expected to be present had to be optimized for forest soils because of high diversity and the presence of rare organisms. Comparative analyses of the pyrosequencing data by oligotyping and OTU (Operational Taxonomic Unit clustering tools indicated that the former yields more refined units of taxonomy with sequence similarity of ≥99.5%. Sequences affiliated with 4 new phyla and 73 genera were identified in the present study as compared to 27 genera reported earlier from the same data (Turlapati et al., 2013. Significant rearrangements in the bacterial community structure were observed with N-amendments revealing the presence of additional genera in N-amended plots with the absence of some that were present in the control plots. Permutational MANOVA analyses indicated significant variation associated with soil horizon and N treatment for a majority of the phyla. In most cases soil horizon partitioned more variation relative to treatment and treatment effects were more evident for the organic horizon. Mantel test results for organic soil showed significant positive correlations between bacterial communities and most soil parameters including NH4 and NO3. In mineral soil, correlations were seen only with pH, NH4 and NO3. Regardless of the pipeline used, a major hindrance for such a study remains to be the lack of reference

Soil organic carbon dynamics jointly controlled by climate, carbon inputs, soil properties and soil carbon fractions.

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Luo, Zhongkui; Feng, Wenting; Luo, Yiqi; Baldock, Jeff; Wang, Enli

2017-10-01

Soil organic carbon (SOC) dynamics are regulated by the complex interplay of climatic, edaphic and biotic conditions. However, the interrelation of SOC and these drivers and their potential connection networks are rarely assessed quantitatively. Using observations of SOC dynamics with detailed soil properties from 90 field trials at 28 sites under different agroecosystems across the Australian cropping regions, we investigated the direct and indirect effects of climate, soil properties, carbon (C) inputs and soil C pools (a total of 17 variables) on SOC change rate (r C , Mg C ha -1  yr -1 ). Among these variables, we found that the most influential variables on r C were the average C input amount and annual precipitation, and the total SOC stock at the beginning of the trials. Overall, C inputs (including C input amount and pasture frequency in the crop rotation system) accounted for 27% of the relative influence on r C , followed by climate 25% (including precipitation and temperature), soil C pools 24% (including pool size and composition) and soil properties (such as cation exchange capacity, clay content, bulk density) 24%. Path analysis identified a network of intercorrelations of climate, soil properties, C inputs and soil C pools in determining r C . The direct correlation of r C with climate was significantly weakened if removing the effects of soil properties and C pools, and vice versa. These results reveal the relative importance of climate, soil properties, C inputs and C pools and their complex interconnections in regulating SOC dynamics. Ignorance of the impact of changes in soil properties, C pool composition and C input (quantity and quality) on SOC dynamics is likely one of the main sources of uncertainty in SOC predictions from the process-based SOC models. © 2017 John Wiley & Sons Ltd.

Soil Patterns Associated with the Major Geological Units of the Kruger National Park

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F.J. Venter

1986-11-01

Full Text Available The dominant soil types of the Kruger National Park and their interrelationships with parent material, topography and climate are discussed. The geogenetic and topogenetic nature of the soils are manifested in the strong correlations between recurrent soil patterns, major geological units and terrain morphology. The soils are categorised into seven major classes on the basis of the parent material from which they developed. General soil patterns within the major classes are discussed.