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Soil sampling method

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https://www.readbyqxmd.com/read/28448613/water-temperature-dependent-degradation-of-environmental-dna-and-its-relation-to-bacterial-abundance
#1
Satsuki Tsuji, Masayuki Ushio, Sho Sakurai, Toshifumi Minamoto, Hiroki Yamanaka
Environmental DNA (eDNA) is DNA shed by organisms into surrounding environments such as soil and water. The new methods using eDNA as a marker for species detection are being rapidly developed. Here we explore basic knowledge regarding the dependence of the eDNA degradation rate on time and water temperature, and the relationship between eDNA degradation and bacterial abundance. This subject has not been well clarified, even though it is essential for improving the reliability of eDNA analysis. To determine the time- and water temperature-dependent degradation of eDNA, river water was sampled and eDNA concentrations were determined for ayu sweetfish (Plecoglossus altivelis altivelis) and common carp (Cyprinus carpio) at seven time points, over a 48-h period, and at three different water temperatures...
2017: PloS One
https://www.readbyqxmd.com/read/28448585/impact-of-temperature-and-soil-type-on-mycobacterium-bovis-survival-in-the-environment
#2
Elodie Barbier, Murielle Rochelet, Laurent Gal, Maria Laura Boschiroli, Alain Hartmann
Mycobacterium bovis, the causative agent of the bovine tuberculosis (bTB), mainly affects cattle, its natural reservoir, but also a wide range of domestic and wild mammals. Besides direct transmission via contaminated aerosols, indirect transmission of the M. bovis between wildlife and livestock might occur by inhalation or ingestion of environmental substrates contaminated through infected animal shedding. We monitored the survival of M. bovis in two soil samples chosen for their contrasted physical and-chemical properties (i...
2017: PloS One
https://www.readbyqxmd.com/read/28442259/microbial-community-structure-and-diversity-in-a-municipal-solid-waste-landfill
#3
Xiaolin Wang, Aixin Cao, Guozhu Zhao, Chuanbin Zhou, Rui Xu
Municipal solid waste (MSW) landfills are the most prevalent waste disposal method and constitute one of the largest sources of anthropogenic methane emissions in the world. Microbial activities in disposed waste play a crucial role in greenhouse gas emissions; however, only a few studies have examined metagenomic microbial profiles in landfills. Here, the MiSeq high-throughput sequencing method was applied for the first time to examine microbial diversity of the cover soil and stored waste located at different depths (0-150cm) in a typical MSW landfill in Yangzhou City, East China...
April 22, 2017: Waste Management
https://www.readbyqxmd.com/read/28440581/the-toxicity-of-silver-to-soil-organisms-exposed-to-silver-nanoparticles-and-silver-nitrate-in-biosolids-amended-field-soil
#4
Alexander H Jesmer, Jessica R Velicogna, Dina M Schwertfeger, Richard P Scroggins, Juliska I Princz
The use of engineered silver nanoparticles (AgNP) is widespread, with expected release to the terrestrial environment through the application of biosolids onto agricultural lands. The toxicity of AgNP and AgNO3 (as ionic Ag(+) ) to plant (Elymus lanceolatus and Trifolium pratense) and soil invertebrate (Eisenia andrei and Folsomia candida) species was assessed using silver-amended biosolids applied to a natural sandy loam soil. Bioavailable Ag(+) in soil samples was estimated using an ion-exchange technique applied to KNO3 soil extracts while exposure to dispersible AgNP was verified by single particle-ICP-MS and TEM-EDS analysis...
April 25, 2017: Environmental Toxicology and Chemistry
https://www.readbyqxmd.com/read/28438425/mobile-laboratories-an-innovative-and-efficient-solution-for-radiological-characterization-of-sites-under-or-after-decommissioning
#5
V Goudeau, B Daniel, D Dubot
During the operation and the decommissioning of a nuclear site the operator must assure the protection of the workers and the environment. It must furthermore identify and classify the various wastes, while optimizing the associated costs. At all stages of the decommissioning radiological measurements are performed to determine the initial situation, to monitor the demolition and clean-up, and to verify the final situation. Radiochemical analysis is crucial for the radiological evaluation process to optimize the clean-up operations and to the respect limits defined with the authorities...
April 21, 2017: Journal of Environmental Radioactivity
https://www.readbyqxmd.com/read/28437648/assessing-soil-air-partitioning-of-pahs-and-pcbs-with-a-new-fugacity-passive-sampler
#6
Carey E Donald, Kim A Anderson
Soil-air fluxes of polycyclic aromatic hydrocarbons (PAHs) and polychlorinated biphenyls (PCBs) were determined using a novel application of passive samplers to measure air and soil air, which is air in close proximity and in equilibrium with soil. Existing methods to measure flux of semi-volatile compounds between soil and air require collecting samples from the top soil layer. Yet, the top soil layer is hard to define and oversampling may misrepresent the exchangeable fraction. Alternatively, modified active samplers can measure soil air in situ, but require electricity while deployed...
April 21, 2017: Science of the Total Environment
https://www.readbyqxmd.com/read/28432879/seasonal-variation-and-health-risk-assessment-of-organochlorine-compounds-in-urban-soils-of-novi-sad-serbia
#7
Biljana D Škrbić, Vesna Marinković, Igor Antić, Anita Petrović Gegić
The aim of this paper was to determine spatial and seasonal variation of 6 indicator polychlorinated biphenyls (PCBs) and 18 organochlorine pesticides (OCPs) in urban soils of Novi Sad, Serbia. Sixty surface soil samples were collected during both winter and summer season, from different types of locations: schools, recreational areas, residential and industrial zones. Samples were treated using the method of accelerated solvent extraction, which allows simultaneous extraction and clean up of PCBs and OCPs...
April 15, 2017: Chemosphere
https://www.readbyqxmd.com/read/28431310/characterization-of-bacterial-communities-of-donkey-milk-by-high-throughput-sequencing
#8
Maria de Los Dolores Soto Del Rio, Alessandra Dalmasso, Tiziana Civera, Maria Teresa Bottero
The interest in donkey milk (DM) is growing because of its functional properties and nutritional value, especially for children with allergies and food intolerances. However, most of the available reports of DM microbiota are based on culture-dependent methods to investigate food safety issues and the presence of lactic acid bacteria (LAB). The aim of this study was to determine the composition of DM bacterial communities using a high-throughput sequencing (HTS) approach. Bulk milk samples from Italian donkey dairy farms from two consecutive years were analysed using the MiSeq Illumina platform...
March 30, 2017: International Journal of Food Microbiology
https://www.readbyqxmd.com/read/28429050/assessment-of-cr-ni-and-pb-pollution-in-rural-agricultural-soils-of-tonalite-trondjhemite-series-in-central-india
#9
Kriti Shukla, Bijendra Kumar, Rahul Agrawal, Kumari Priyanka, Madavi Venkatesh, Anshumali
Chromium (Cr), nickel (Ni) and lead (Pb) contamination was investigated in wheat cultivated rain-fed and irrigated rural agricultural soils (n = 31) of Tonalite-Trondjhemite Series in Central India. The soil sampling was carried out by using stratified random sampling method. The mean concentrations of Cr, Ni and Pb were 54.8, 38.1 and 68.9 mg/kg, respectively. The average values of enrichment factor (EF), geoaccumulation index (I geo ) and contamination factor (CF) followed the order as: Pb > Ni > Cr...
April 20, 2017: Bulletin of Environmental Contamination and Toxicology
https://www.readbyqxmd.com/read/28424205/the-use-of-soil-pollen-to-determine-the-sex-of-overhead-individuals-of-a-temperate-dioecious-shrub
#10
Anna Sugiyama, Koji Shichi, Takashi Masaki, Stephen P Hubbell
PREMISE OF THE STUDY: In dioecious species, determining the sex of individual plants from one-time phenological observations is rarely feasible when some individuals capable of reproducing are not flowering or fruiting at the time of observation. Currently, sexing those individuals requires long-term phenological data on individuals and populations, but such data are rarely available or feasible to collect. We tested the hypothesis that differences in soil pollen concentrations beneath the crowns of female and male plants would exist and be sufficient to reliably determine the sex of the individual plant overhead in a dioecious species...
April 19, 2017: American Journal of Botany
https://www.readbyqxmd.com/read/28421041/metagenome-wide-association-study-and-machine-learning-prediction-of-bulk-soil-microbiome-and-crop-productivity
#11
Hao-Xun Chang, James S Haudenshield, Charles R Bowen, Glen L Hartman
Areas within an agricultural field in the same season often differ in crop productivity despite having the same cropping history, crop genotype, and management practices. One hypothesis is that abiotic or biotic factors in the soils differ between areas resulting in these productivity differences. In this study, bulk soil samples collected from a high and a low productivity area from within six agronomic fields in Illinois were quantified for abiotic and biotic characteristics. Extracted DNA from these bulk soil samples were shotgun sequenced...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28420084/assessment-of-the-occupational-health-and-food-safety-risks-associated-with-the-traditional-slaughter-and-consumption-of-goats-in-gauteng-south-africa
#12
Daniel N Qekwana, Cheryl M E McCrindle, James W Oguttu, Delia Grace
BACKGROUND: This study assessed the occupational health and food safety risks associated with the traditional slaughter of goats and the consumption of such meat in Tshwane, South Africa. METHODS: A convenience sample of 105 respondents agreed to be interviewed using structured questionnaires. RESULTS: A high proportion (62.64%) of practitioners admitted to not wearing protective clothing during slaughter. Slaughtering was mainly carried out by males (99%) with experience (62...
April 14, 2017: International Journal of Environmental Research and Public Health
https://www.readbyqxmd.com/read/28411348/quantitative-detection-of-fecal-contamination-with-domestic-poultry-feces-in-environments-in-china
#13
Fang-Fang Zhuang, Hu Li, Xin-Yuan Zhou, Yong-Guan Zhu, Jian-Qiang Su
Poultry are an important source of fecal contamination in environments. However, tools for detecting and tracking this fecal contamination are in the early stages of development. In practice, we have found that source tracking methods targeting the 16S rRNA genes of poultry-specific microbiota are not sufficiently sensitive. We therefore developed two quantitative PCR assays for detection of poultry fecal contamination, by targeting chicken and duck mitochondrial genes: NADH dehydrogenase subunit 5 (ND5) and cytochrome b (cytb)...
December 2017: AMB Express
https://www.readbyqxmd.com/read/28402027/simultaneous-determination-of-difenoconazole-trifloxystrobin-and-its-metabolite-trifloxystrobin-acid-residues-in-watermelon-under-field-conditions-by-gc%C3%A2-%C3%A2-ms-ms
#14
Di Kang, Haizhen Zhang, Yuling Chen, Fei Wang, Lihong Shi, Deyu Hu, Kankan Zhang
An optimized QuEChERS method for the simultaneous determination of difenoconazole, trifloxystrobin and its metabolite trifloxystrobin acid residues in watermelon and soil was developed and validated by gas chromatography with tandem mass spectrometry. The samples were extracted with acetonitrile (1% formic acid) and cleaned up by dispersive solid-phase extraction with octadecylsilane sorbent. The limit of quantification of the method was 0.01 mg/kg, and the limit of detection was 0.003 mg/kg for all three analytes...
April 12, 2017: Biomedical Chromatography: BMC
https://www.readbyqxmd.com/read/28397167/a-simple-in-situ-preconcentration-method-for-the-simultaneous-determination-of-major-and-minor-alkali-and-alkaline-earth-metals-in-natural-waters-using-iminodiacetate-grafted-fiber
#15
Fyodor S Kot, Kunio Fujiwara, Malik Kochva
A simple and effective procedure was developed for the simultaneous in situ preconcentration of major and minor alkali and alkaline-earth metals (Li, Na, K, Rb, Mg, Ca, Sr, and Ba) from natural waters with iminodiacetate-grafted fiber (IDA-fiber), using soil water extracts as an example. The method was verified on mixed standard solutions of the metals at concentrations and ionic strengths reported for regular soil solutions. When complemented with routine microfiltration procedures, the method could distinguish between the dissolved in hydrated ion form and bound fractions of these metals, presumably colloidal and firmly complexed...
April 10, 2017: Analytical and Bioanalytical Chemistry
https://www.readbyqxmd.com/read/28394446/laser-ablation-electrospray-ionization-mass-spectrometry-with-ion-mobility-separation-reveals-metabolites-in-the-symbiotic-interactions-of-soybean-roots-and-rhizobia
#16
Sylwia A Stopka, Beverly J Agtuca, David W Koppenaal, Ljiljana Paša-Tolić, Gary Stacey, Akos Vertes, Christopher R Anderton
Technologies enabling in situ metabolic profiling of living plant systems are invaluable for understanding physiological processes and could be used for rapid phenotypic screening (e.g., to produce plants with superior biological nitrogen fixing ability). The symbiotic interaction between legumes and nitrogen-fixing soil bacteria results in a specialized plant organ (i.e., root nodule) where the exchange of nutrients between host and endosymbiont occurs. Laser ablation electrospray ionization mass spectrometry (LAESI-MS) is a method that can be performed under ambient conditions requiring minimal sample preparation...
April 10, 2017: Plant Journal: for Cell and Molecular Biology
https://www.readbyqxmd.com/read/28391835/mercury-fractionation-in-soil-and-sediment-samples-using-thermo-desorption-method
#17
Dominika Saniewska, M Bełdowska
Mercury is one of the most hazardous elements. Its transformation and transport in the environment strongly depend on its chemical form. The information about Hg form is also important for understanding the bioavailability as well as toxicity of this element. There are many methods for Hg speciation but most of them are expensive and time consuming. Therefore the aim of this research was to develop a simple thermo-desorption method for mercury fractionation in soil and sediment samples using a direct mercury analyser...
June 1, 2017: Talanta
https://www.readbyqxmd.com/read/28389848/concentrations-of-trace-elements-and-iron-in-the-arctic-soils-of-belyi-island-the-kara-sea-russia-patterns-of-variation-across-landscapes
#18
D V Moskovchenko, A N Kurchatova, N N Fefilov, A A Yurtaev
The concentrations of several trace elements and iron were determined in 26 soil samples from Belyi Island in the Kara Sea (West Siberian sector of Russian Arctic). The major types of soils predominating in the soil cover were sampled. The concentrations of trace elements (mg kg(-1)) varied within the following ranges: 119-561 for Mn, 9.5-126 for Zn, 0.082-2.5 for Cd, <0.5-19.2 for Cu, <0.5-132 for Pb, 0.011-0.081 for Hg, <0.5-10.3 for Co, and 7.6-108 for Cr; the concentration of Fe varied from 3943 to 37,899 mg kg(-1)...
May 2017: Environmental Monitoring and Assessment
https://www.readbyqxmd.com/read/28388929/novel-soil-inhabiting-clades-fill-gaps-in-the-fungal-tree-of-life
#19
Leho Tedersoo, Mohammad Bahram, Rasmus Puusepp, R Henrik Nilsson, Timothy Y James
BACKGROUND: Fungi are a diverse eukaryotic group of degraders, pathogens, and symbionts, with many lineages known only from DNA sequences in soil, sediments, air, and water. RESULTS: We provide rough phylogenetic placement and principal niche analysis for >40 previously unrecognized fungal groups at the order and class level from global soil samples based on combined 18S (nSSU) and 28S (nLSU) rRNA gene sequences. Especially, Rozellomycota (Cryptomycota), Zygomycota s...
April 8, 2017: Microbiome
https://www.readbyqxmd.com/read/28387044/simultaneous-determination-of-pyrametostrobin-and-its-two-metabolites-in-cucumber-and-soil-using-a-quick-easy-cheap-effective-rugged-and-safe-method-with-hplc-ms-ms
#20
Chengtian Huang, He Zhu, Yang Yu, Qi Ding, Fuyan Jia, Bochui Zhao, Siyuan Wei, Dangsheng Gong, Weichang Xu, Mingshan Ji
An easy, effective and sensitive analytical method for the simultaneous determination of a novel fungicide pyrametostrobin and its two metabolites pyrametostrobin-M1 and pyrametostrobin-M2 in cucumber and soil was developed using a quick, easy, cheap, effective, rugged, and safe method with high-performance liquid chromatography and tandem mass spectrometry. The extraction solvent was acetonitrile, and cleanup sorbents were primary secondary amine and graphitized carbon black for cucumber samples and primary secondary amine for soil samples...
April 7, 2017: Journal of Separation Science
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