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soil biology

M Anza, L Epelde, U Artetxe, J M Becerril, C Garbisu
In the north of Spain, Cortaderia selloana plants have invaded ecosystems of high ecological value. Control of this species is carried out with the application of glyphosate-based formulations. The aim of this work was to determine, under microcosm conditions, the short-term (2 months) effects of the application of a glyphosate-based herbicide (Roundup®) on C. selloana rhizosphere microbial communities. To this purpose, before and after the application of Roundup®, several parameters that provide information on the biomass, activity and diversity of rhizosphere fungal and bacterial communities (enzyme activities, basal and substrate-induced respiration, potentially mineralizable nitrogen, nitrification potential rate, ergosterol content and community-level profiles with Biolog™ plates and ARISA) were determined...
November 2016: Environmental Monitoring and Assessment
Magdalena Krawczyk, Ewa Stanisz
The combination of ultrasound-assisted dispersive micro solid-phase extraction (USA DMSPE), with the use of TiO2 nanoparticles (NPs) as adsorbent, with cold vapor atomic absorption spectrometry (CV AAS) is proposed for preconcentration and determination of mercury species (Hgtotal, Hg(2+) and CH3Hg(+)) in biological, geological and water samples. The experimental parameters including the amount of TiO2 NPs, pH of sample solution, ultrasonication and centrifugation time, TiO2 slurry solution preparation before injection to CV AAS were investigated...
December 1, 2016: Talanta
Natalia Lifshitz, Colleen Cassady St Clair
Growth in human populations causes habitat degradation for other species, which is usually gauged by physical changes to landscapes. Corresponding habitat degradation to air and water is also common, but its effects on individuals can be difficult to detect until they result in the decline or disappearance of populations. More proactive measures of pollution usually combine abiotic samples of soil, water or air with invasive sampling of expendable species, but this approach sometimes creates ethical dilemmas and has limited application for threatened species...
2016: Conservation Physiology
Monalize Salete Mota, Cesar Bauer Gomes, Ismail Teodoro Souza Júnior, Andréa Bittencourt Moura
This study aimed to evaluate the biocontrol potential of bacteria isolated from different plant species and soils. The production of compounds related to phytopathogen biocontrol and/or promotion of plant growth in bacterial isolates was evaluated by measuring the production of antimicrobial compounds (ammonia and antibiosis) and hydrolytic enzymes (amylases, lipases, proteases, and chitinases) and phosphate solubilization. Of the 1219 bacterial isolates, 92% produced one or more of the eight compounds evaluated, but only 1% of the isolates produced all the compounds...
October 4, 2016: Brazilian Journal of Microbiology: [publication of the Brazilian Society for Microbiology]
J E Truscott, H C Turner, S H Farrell, R M Anderson
Infections caused by soil-transmitted helminthias (STHs) affect over a billion people worldwide, causing anaemia and having a large social and economic impact through poor educational outcomes. They are identified in the World Health Organization (WHO) 2020 goals for neglected tropical diseases as a target for renewed effort to ameliorate their global public health burden through mass drug administration (MDA) and water and hygiene improvement. In this chapter, we review the underlying biology and epidemiology of the three causative intestinal nematode species that are mostly considered under the STH umbrella term...
2016: Advances in Parasitology
Andrew Olaf Shelton, James Lawrence O'Donnell, Jameal F Samhouri, Natalie Lowell, Gregory D Williams, Ryan P Kelly
Environmental DNA (eDNA), genetic material recovered from an environmental medium such as soil, water, or feces, reflects the membership of the ecological community present in the sampled environment. As such, eDNA is a potentially rich source of data for basic ecology, conservation, and management, because it offers the prospect of quantitatively reconstructing whole ecological communities from easily obtained samples. However, like all sampling methods, eDNA sequencing is subject to methodological limitations that can generate biased descriptions of ecological communities...
September 2016: Ecological Applications: a Publication of the Ecological Society of America
Clara Martín-Fernández, Sandra López-Rayo, Lourdes Hernández-Apaolaza, Juan J Lucena
BACKGROUND: An efficient use of Fe chelates is crucial to avoid environmental risks and reduce economic losses. The HBED/Fe(3+) has been recently approved by the EU for soil fertilization, but studies delving into the best timing for its application are necessary. In this work, a batch incubation experiment and two biological experiments were developed to determine the optimal physiological stage for a sustainable application of HBED/Fe(3+) in soil fertilization compared with EDDHA/Fe(3+) fertilizers using (57) Fe...
October 18, 2016: Journal of the Science of Food and Agriculture
Mónica Terán-Hernández, Fernando Díaz-Barriga, Ana Cristina Cubillas-Tejeda
Objective To carry out a diagnosis of children's environmental health and an analysis of risk perception in indigenous communities of the Huasteca Sur region of San Luis Potosí, Mexico, in order to design an intervention strategy in line with their needs. Methods The study used mixed methods research, carried out in two phases. It was conducted in three indigenous communities of Tancanhuitz municipality from January 2005 to June 2006. In the adult population, risk perception was analyzed through focus groups, in-depth interviews, and questionnaires...
February 2016: Revista Panamericana de Salud Pública, Pan American Journal of Public Health
Xu Han, Zhihui Cheng, Huanwen Meng
BACKGROUND: Garlic (Allium sativum L.) stalk is a byproduct of garlic production that is normally thought of as waste but is now considered to be a useful biological resource. It is necessary to utilise this resource efficiently and reasonably to reduce environmental pollution and achieve sustainable agricultural development. RESULTS: The effect of decomposed garlic stalk for different durations was investigated in this study using wheat (Triticum aestivum L.) and lettuce (Lactuca sativa var...
October 17, 2016: Journal of the Science of Food and Agriculture
Habteab Habtom, Sandrine Demanèche, Lorna Dawson, Chen Azulay, Ofra Matan, Patrick Robe, Ron Gafny, Pascal Simonet, Edouard Jurkevitch, Zohar Pasternak
The ubiquity and transferability of soil makes it a resource for the forensic investigator, as it can provide a link between agents and scenes. However, the information contained in soils, such as chemical compounds, physical particles or biological entities, is seldom used in forensic investigations; due mainly to the associated costs, lack of available expertise, and the lack of soil databases. The microbial DNA in soil is relatively easy to access and analyse, having thus the potential to provide a powerful means for discriminating soil samples or linking them to a common origin...
October 6, 2016: Forensic Science International. Genetics
Jin-Lian Chen, Shi-Zhong Sun, Cui-Ping Miao, Kai Wu, You-Wei Chen, Li-Hua Xu, Hui-Lin Guan, Li-Xing Zhao
BACKGROUND: Biocontrol agents are regarded as promising and environmental friendly approaches as agrochemicals for phytodiseases that cause serious environmental and health problems. Trichoderma species have been widely used in suppression of soil-borne pathogens. In this study, an endophytic fungus, Trichoderma gamsii YIM PH30019, from healthy Panax notoginseng root was investigated for its biocontrol potential. METHODS: In vitro detached healthy roots, and pot and field experiments were used to investigate the pathogenicity and biocontrol efficacy of T...
October 2016: Journal of Ginseng Research
Jiyeon Kim, Elizabeth Kern, Taeho Kim, Mikang Sim, Jaebum Kim, Yuseob Kim, Chungoo Park, Steven A Nadler, Joong-Ki Park
Plectida is an important nematode order with species that occupy many different biological niches. The order includes free-living aquatic and soil-dwelling species, but its phylogenetic position has remained uncertain. We sequenced the complete mitochondrial genomes of two members of this order, Plectus acuminatus and Plectus aquatilis and compared them with those of other major nematode clades. The genome size and base composition of these species are similar to other nematodes; 14,831 and 14,372 bp, respectively, with AT contents of 71...
October 13, 2016: Molecular Phylogenetics and Evolution
N F Quinn, D C Brainard, Z Szendrei
Conservation tillage combined with cover crops or mulching may enhance natural enemy activity in agroecosystems by reducing soil disturbance and increasing habitat structural complexity. In particular, weed seed predation can increase with vegetation cover and reduced tillage, indicating that mulches may improve the quality of the habitat for weed seed foraging. The purpose of this study was to quantify the effects of tillage and mulching for conservation biological control in cucurbit fields. The effects of mulch and reduced tillage on arthropods and rates of weed seed loss from arenas were examined in field trials on sandy soils in 2014 and 2015...
October 15, 2016: Environmental Entomology
Ying Teng, Shijiang Feng, Wenjie Ren, Lingjia Zhu, Wenting Ma, Peter Christie, Yongming Luo
A pot experiment was conducted to explore the phytoremediation of a diphenylarsinic acid (DPAA) spiked soil using Pteris vittata associated with exogenous Phyllobacterium myrsinacearum RC6b. Removal of DPAA from the soil, soil enzyme activities and the functional diversity of the soil microbial community were evaluated. DPAA concentrations in soil treated with the fern or the bacterium were 35-47% lower than that in the control and were lowest in soil treated with P. vittata and P. myrsinacearum together. The presence of the bacterium added in the soil significantly increased the plant growth and DPAA accumulation...
October 14, 2016: International Journal of Phytoremediation
Yong Li, Jinshui Wu, Jianlin Shen, Shoulong Liu, Cong Wang, Dan Chen, Tieping Huang, Jiabao Zhang
Maintaining good soil productivity in rice paddies is important for global food security. Numerous methods have been developed to evaluate paddy soil productivity (PSP), most based on soil physiochemical properties and relatively few on biological indices. Here, we used a long-term dataset from experiments on paddy fields at eight county sites and a short-term dataset from a single field experiment in southern China, and aimed at quantifying relationships between PSP and the ratios of carbon (C) to nutrients (N and P) in soil microbial biomass (SMB)...
October 14, 2016: Scientific Reports
Julien Crovadore, Bastien Cochard, Gautier Calmin, Romain Chablais, Torsten Schulz, François Lefort
We report here the whole-genome shotgun sequence of the strain UASWS0955 of the species Pseudomonas xanthomarina, isolated from sewage sludge. This genome was obtained with an Illumina MiniSeq and is the second genome registered for this species, which is considered as a promising resource for agriculture and bioremediation of contaminated soils.
October 13, 2016: Genome Announcements
Zachary B Freedman, Rima A Upchurch, Donald R Zak
Fossil fuel combustion and fertilizer use has increased the amount of biologically available N entering terrestrial ecosystems. Nonetheless, our understanding of how anthropogenic N may alter the physiological mechanisms by which soil microorganisms cycle N in soil is still developing. Here, we applied shotgun metagenomics to a replicated long-term field experiment to determine how two decades of experimental N deposition, at a rate expected by mid-century, has affected the genetic potential of the soil microbial community to cycle N in soils...
2016: PloS One
Timothy L Haskett, Jason J Terpolilli, Amanuel Bekuma, Graham W O'Hara, John T Sullivan, Penghao Wang, Clive W Ronson, Joshua P Ramsay
Integrative and conjugative elements (ICEs) are ubiquitous mobile genetic elements present as "genomic islands" within bacterial chromosomes. Symbiosis islands are ICEs that convert nonsymbiotic mesorhizobia into symbionts of legumes. Here we report the discovery of symbiosis ICEs that exist as three separate chromosomal regions when integrated in their hosts, but through recombination assemble as a single circular ICE for conjugative transfer. Whole-genome comparisons revealed exconjugants derived from nonsymbiotic mesorhizobia received three separate chromosomal regions from the donor Mesorhizobium ciceri WSM1271...
October 12, 2016: Proceedings of the National Academy of Sciences of the United States of America
Manan Sharma, Russell Reynnells
Biological soil amendments (BSAs) such as manure and compost are frequently used as organic fertilizers to improve the physical and chemical properties of soils. However, BSAs have been known to be a reservoir for enteric bacterial pathogens such as enterohemorrhagic Escherichia coli (EHEC), Salmonella spp., and Listeria spp. There are numerous mechanisms by which manure may transfer pathogens to growing fruits and vegetables, and several outbreaks of infections have been linked to manure-related contamination of leafy greens...
August 2016: Microbiology Spectrum
Kevin C Lee, Stephen D J Archer, Rachel H Boyle, Donnabella C Lacap-Bugler, Jayne Belnap, Stephen B Pointing
A common feature of microbial colonization in deserts is biological soil crusts (BSCs), and these comprise a complex community dominated by Cyanobacteria. Rock substrates, particularly sandstone, are also colonized by microbial communities. These are separated by bare sandy soil that also supports microbial colonization. Here we report a high-throughput sequencing study of BSC and cryptoendolith plus adjacent bare soil communities in the Colorado Plateau Desert, Utah, USA. Bare soils supported a community with low levels of recoverable DNA and high evenness, whilst BSC yielded relatively high recoverable DNA, and reduced evenness compared to bare soil due to specialized crust taxa...
2016: Frontiers in Microbiology
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