keyword
MENU ▼
Read by QxMD icon Read
search

Microbial diversity

keyword
https://www.readbyqxmd.com/read/28645031/understanding-the-variation-of-microbial-community-in-heavy-metals-contaminated-soil-using-high-throughput-sequencing
#1
Honghong Guo, Mubasher Nasir, Jialong Lv, Yunchao Dai, Jiakai Gao
To improve the understanding of bacterial community in heavy metals contaminated soils, we studied the effects of environmental factors on the bacterial community structure in contaminated fields located in Shaanxi Province of China. Our results showed that microbial community structure varied among sites, and it was significantly affected by soil environmental factors such as pH, soil organic matter (SOM), Cd, Pb and Zn. In addition, Spearman's rank-order correlation indicated heavy metal sensitive (Ralstonia, Gemmatimona, Rhodanobacter and Mizugakiibacter) and tolerant (unidentified-Nitrospiraceae, Blastocatella and unidentified-Acidobacteria) microbial groups...
June 20, 2017: Ecotoxicology and Environmental Safety
https://www.readbyqxmd.com/read/28645029/phytoavailability-of-cr-in-silene-vulgaris-the-role-of-soil-plant-genotype-and-bacterial-rhizobiome
#2
P García-Gonzalo, A E Pradas Del Real, M Pirredda, M J Gismera, M C Lobo, A Pérez-Sanz
Understanding the metal behavior at the soil-root interface is of utmost significance for a successful implementation of phytoremediation. In this study, we investigated the differences in chromium (Cr) uptake, chemical changes in soil solution and the shifts in rhizosphere bacterial communities of two genotypes of Silene vulgaris (SV21, SV38) with different tolerance to Cr. A greenhouse experiment was performed in two soils that differed on pH and organic matter (OM) content. An industrial sludge with high content in Cr was used as pollution source...
June 20, 2017: Ecotoxicology and Environmental Safety
https://www.readbyqxmd.com/read/28644444/energy-and-carbon-metabolisms-in-a-deep-terrestrial-subsurface-fluid-microbial-community
#3
Lily Momper, Sean P Jungbluth, Michael D Lee, Jan P Amend
The terrestrial deep subsurface is a huge repository of microbial biomass, but in relation to its size and physical heterogeneity, few sites have been investigated in detail. Here, we applied a culture-independent metagenomic approach to characterize the microbial community composition in deep (1500 meters below surface) terrestrial fluids. Samples were collected from a former gold mine in Lead, South Dakota, USA, now Sanford Underground Research Facility (SURF). We reconstructed 74 genomes from metagenomes (MAGs), enabling the identification of common metabolic pathways...
June 23, 2017: ISME Journal
https://www.readbyqxmd.com/read/28644442/linking-the-development-and-functioning-of-a-carnivorous-pitcher-plant-s-microbial-digestive-community
#4
David W Armitage
Ecosystem development theory predicts that successional turnover in community composition can influence ecosystem functioning. However, tests of this theory in natural systems are made difficult by a lack of replicable and tractable model systems. Using the microbial digestive associates of a carnivorous pitcher plant, I tested hypotheses linking host age-driven microbial community development to host functioning. Monitoring the yearlong development of independent microbial digestive communities in two pitcher plant populations revealed a number of trends in community succession matching theoretical predictions...
June 23, 2017: ISME Journal
https://www.readbyqxmd.com/read/28643626/what-defines-the-kingdom-fungi
#5
Thomas A Richards, Guy Leonard, Jeremy G Wideman
The application of environmental DNA techniques and increased genome sequencing of microbial diversity, combined with detailed study of cellular characters, has consistently led to the reexamination of our understanding of the tree of life. This has challenged many of the definitions of taxonomic groups, especially higher taxonomic ranks such as eukaryotic kingdoms. The Fungi is an example of a kingdom which, together with the features that define it and the taxa that are grouped within it, has been in a continual state of flux...
June 2017: Microbiology Spectrum
https://www.readbyqxmd.com/read/28643623/the-genomic-basis-of-lactobacilli-as-health-promoting-organisms
#6
Elisa Salvetti, Paul W O'Toole
Lactobacilli occupy a unique position in human culture and scientific history. Like brewer's and baker's yeast, lactobacilli have been associated with food production and preservation for thousands of years. Lactobacillus species are used in mixed microbial cultures, such as the classical Lactobacillus bulgaricus/Streptococcus thermophilus inoculum for yogurt fermentation, or combinations of diverse lactobacilli/yeasts in kefir grains. The association of lactobacilli consumption with greater longevity and improved health formed the basis for developing lactobacilli as probiotics, whose market has exploded worldwide in the past 10 years...
June 2017: Microbiology Spectrum
https://www.readbyqxmd.com/read/28643622/lung-microbiota-and-its-impact-on-the-mucosal-immune-phenotype
#7
Benjamin G Wu, Leopoldo N Segal
The use of culture-independent techniques has allowed us to appreciate that the upper and lower respiratory tract contain a diverse community of microbes in health and disease. Research has only recently explored the effects of the microbiome on the host immune response. The exposure of the human body to the bacterial environment is an important factor for immunological development; thus, the interaction between the microbiome and its host is critical to understanding the pathogenesis of disease. In this article, we discuss the mechanisms that determine the composition of the airway microbiome and its effects on the host immune response...
June 2017: Microbiology Spectrum
https://www.readbyqxmd.com/read/28643380/microscopy-visualisation-confirms-multi-species-biofilms-are-ubiquitous-in-diabetic-foot-ulcers
#8
Khalid Johani, Matthew Malone, Slade Jensen, Iain Gosbell, Hugh Dickson, Honhua Hu, Karen Vickery
Increasing evidence within the literature has identified the presence of biofilms in chronic wounds and proposed that they contribute to delayed wound healing. This research aimed to investigate the presence of biofilm in diabetic foot ulcers (DFUs) using microscopy and molecular approaches and define if these are predominantly mono- or multi-species. Secondary objectives were to correlate wound observations against microscopy results in ascertaining if clinical cues are useful in detecting wound biofilm. DFU tissue specimens were obtained from 65 subjects...
June 23, 2017: International Wound Journal
https://www.readbyqxmd.com/read/28643225/using-illumina-based-sequence-analysis-to-guide-probiotic-candidate-selection-and-isolation
#9
Wenfeng Wang, Yi Li, Wangsen Qin, Changyi Sun, Hongming Tan, Lixiang Cao
Selection for probiotic candidates by in vivo experimental trials is time and labor consuming; more informed strategy is needed to select successful probiotic candidates. The aim of the study was to elucidate the microbial taxa transmitted from maize seeds to seedlings during the germination process of maize and their probiotic effects. The bacterial and fungal taxa in kernel germs and sprouts were analyzed by Illumina-based sequencing. The sprouts contained more diverse fungi than those in germs. The bacterial species (OTUs) declined with the germination from germs to the sprouts...
June 22, 2017: Probiotics and Antimicrobial Proteins
https://www.readbyqxmd.com/read/28642945/nonribosomal-peptide-synthetase-biosynthetic-clusters-of-eskape-pathogens
#10
REVIEW
Andrew M Gulick
Covering: up to 2017.Natural products are important secondary metabolites produced by bacterial and fungal species that play important roles in cellular growth and signaling, nutrient acquisition, intra- and interspecies communication, and virulence. A subset of natural products is produced by nonribosomal peptide synthetases (NRPSs), a family of large, modular enzymes that function in an assembly line fashion. Because of the pharmaceutical activity of many NRPS products, much effort has gone into the exploration of their biosynthetic pathways and the diverse products they make...
June 23, 2017: Natural Product Reports
https://www.readbyqxmd.com/read/28642842/the-tick-microbiome-why-non-pathogenic-microorganisms-matter-in-tick-biology-and-pathogen-transmission
#11
REVIEW
Sarah I Bonnet, Florian Binetruy, Angelica M Hernández-Jarguín, Olivier Duron
Ticks are among the most important vectors of pathogens affecting humans and other animals worldwide. They do not only carry pathogens however, as a diverse group of commensal and symbiotic microorganisms are also present in ticks. Unlike pathogens, their biology and their effect on ticks remain largely unexplored, and are in fact often neglected. Nonetheless, they can confer multiple detrimental, neutral, or beneficial effects to their tick hosts, and can play various roles in fitness, nutritional adaptation, development, reproduction, defense against environmental stress, and immunity...
2017: Frontiers in Cellular and Infection Microbiology
https://www.readbyqxmd.com/read/28642755/vaginal-and-uterine-bacterial-communities-in-postpartum-lactating-cows
#12
Brooke A Clemmons, Sydney T Reese, Felipe G Dantas, Gessica A Franco, Timothy P L Smith, Olusoji I Adeyosoye, Ky G Pohler, Phillip R Myer
Reproductive inefficiency in cattle has major impacts on overall productivity of cattle operations, increasing cost of production, and impacting the sustainability of the cattle enterprise. Decreased reproductive success and associated disease states have been correlated with the presence of specific microbes and microbial community profiles, yet details of the relationship between microbial communities and host physiology are not well known. The present study profiles and compares the microbial communities in the bovine uterus and vagina using 16S rRNA sequencing of the V1-V3 hypervariable region at the time of artificial insemination...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28641186/composition-of-dissolved-organic-matter-dom-from-periodically-submerged-soils-in-the-three-gorges-reservoir-areas-as-determined-by-elemental-and-optical-analysis-infrared-spectroscopy-pyrolysis-gc-ms-and-thermally-assisted-hydrolysis-and-methylation
#13
Tao Jiang, Joeri Kaal, Jian Liang, Yaoling Zhang, Shiqiang Wei, Dingyong Wang, Nelson W Green
Soil-derived dissolved organic matter (DOM) has a major influence in biogeochemical processes related to contaminant dynamics and greenhouse gas emissions, due to its reactivity and its bridging role between the soil and aquatic systems. Within the Three Gorges Reservoir (TGR, China) area, an extensive water-fluctuation zone periodically submerges the surrounding soils. Here we report a characterization study of soil-derived DOM across the TGR areas, using elemental and optical analysis, infrared spectroscopy (FTIR), pyrolysis-GC-MS (Py-GC-MS) and thermally assisted hydrolysis and methylation (THM-GC-MS)...
June 19, 2017: Science of the Total Environment
https://www.readbyqxmd.com/read/28641173/population-dynamics-of-electrogenic-microbial-communities-in-microbial-fuel-cells-started-with-three-different-inoculum-sources
#14
Shun'ichi Ishii, Shino Suzuki, Yuko Yamanaka, Angela Wu, Kenneth H Nealson, Orianna Bretschger
Microbial fuel cells (MFCs) are one of the bioelectrochemical systems that exploit microorganisms as biocatalysts to degrade organic matters and recover energy as electric power. Here, we explored how the established electrogenic microbial communities were influenced by three different inoculum sources; anaerobic sludge of the wastewater plant, rice paddy field soil, and coastal lagoon sediment. We periodically characterized both electricity generation with sucrose consumption and 16S rRNA-basis microbial community composition...
June 15, 2017: Bioelectrochemistry
https://www.readbyqxmd.com/read/28640897/impact-of-selected-non-steroidal-anti-inflammatory-pharmaceuticals-on-microbial-community-assembly-and-activity-in-sequencing-batch-reactors
#15
Cong Jiang, Jinju Geng, Haidong Hu, Haijun Ma, Xingsheng Gao, Hongqiang Ren
This study covers three widely detected non-steroidal anti-inflammatory pharmaceuticals (NSAIDs), diclofenac (DCF), ibuprofen (IBP) and naproxen (NPX), as NSAIDs pollutants. The objective is to evaluate the impact of NSAIDs at their environmental concentrations on microbial community assembly and activity. The exposure experiments were conducted under three conditions (5 μg L-1 DCF, 5 μg L-1 DCF+5 μg L-1 IBP and 5 μg L-1 DCF+5 μg L-1 IBP+ 5 μg L-1 NPX) in sequencing batch reactors (SBRs) for 130 days...
2017: PloS One
https://www.readbyqxmd.com/read/28640599/a-high-throughput-dna-sequencing-approach-to-determine-sources-of-fecal-bacteria-in-a-lake-superior-estuary
#16
Clairessa M Brown, Christopher Staley, Ping Wang, Brent Dalzell, Chan Lan Chun, Michael J Sadowsky
Current microbial source tracking (MST) methods, employed to determine sources of fecal contamination in waterways, use molecular markers targeting host-associated bacteria in animal or human feces. However, there is a lack of knowledge about fecal microbiome composition in several animals and imperfect marker specificity and sensitivity. To overcome these issues, a community-based MST method has been developed. Here, we describe a study done in the Lake Superior-St. Louis River estuary using SourceTracker, a program that calculates the source contribution to an environment...
June 22, 2017: Environmental Science & Technology
https://www.readbyqxmd.com/read/28638986/effect-of-electrode-potentials-on-the-microbial-community-of-photo-bioelectrochemical-systems
#17
Yicheng Wu, Yue Zheng, Yong Xiao, Zejie Wang, Feng Zhao
Increasing attention is being paid to the adoption of photoautotrophic microbes in bioelectrochemical systems (BESs) because of the advantages of self-sustainability. Biased potential on the anode was capable of adjusting the performance of non-photo BESs, and the microbial community structure was also changed; however, few studies have been conducted to investigate the effects of potential on microbial community structure in photo-BESs. In this work, the response of microbial community structure to different potentials (i...
July 2017: World Journal of Microbiology & Biotechnology
https://www.readbyqxmd.com/read/28638372/diversity-and-composition-of-sulfate-reducing-microbial-communities-based-on-genomic-dna-and-rna-transcription-in-production-water-of-high-temperature-and-corrosive-oil-reservoir
#18
Xiao-Xiao Li, Jin-Feng Liu, Lei Zhou, Serge M Mbadinga, Shi-Zhong Yang, Ji-Dong Gu, Bo-Zhong Mu
Deep subsurface petroleum reservoir ecosystems harbor a high diversity of microorganisms, and microbial influenced corrosion is a major problem for the petroleum industry. Here, we used high-throughput sequencing to explore the microbial communities based on genomic 16S rDNA and metabolically active 16S rRNA analyses of production water samples with different extents of corrosion from a high-temperature oil reservoir. Results showed that Desulfotignum and Roseovarius were the most abundant genera in both genomic and active bacterial communities of all the samples...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28638072/diet-induced-reconstruction-of-mucosal-microbiota-associated-with-alterations-of-epithelium-lectin-expression-and-regulation-in-the-maintenance-of-rumen-homeostasis
#19
Hong Shen, Zhongyan Lu, Zhihui Xu, Zanming Shen
It is unknown whether lectins of the rumen epithelium contribute to the recognition of mucosal microbes and activation of tolerogenic cytokines in ruminant animals. We applied an integrated method of RNA-seq and 16S rRNA gene sequencing to investigate alterations of epithelial lectin expression and regulation with a diet-induced reconstruction of the mucosal microbiota in the goat rumen. Our results showed that the diversity and richness of the rumen mucosal microbiota were promoted by the dietary concentrate...
June 21, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28637848/using-captain-scott-s-discovery-specimens-to-unlock-the-past-has-antarctic-cyanobacterial-diversity-changed-over-the-last-100-years
#20
Anne D Jungblut, Ian Hawes
Evidence of climate-driven environmental change is increasing in Antarctica, and with it comes concern that this will propagate to impacts on biological communities. Recognition and prediction of change needs to incorporate the extent and timescales over which communities vary under extant conditions. However, few observations of Antarctic microbial communities, which dominate inland habitats, allow this. We therefore carried out the first molecular comparison of Cyanobacteria in historic herbarium microbial mats from freshwater ecosystems on Ross Island and the McMurdo Ice Shelf, collected by Captain R...
June 28, 2017: Proceedings. Biological Sciences
keyword
keyword
66752
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"