keyword
MENU ▼
Read by QxMD icon Read
search

Microbial diversity

keyword
https://www.readbyqxmd.com/read/29350768/diet-affects-gut-microbiota-and-modulates-hospitalization-risk-differentially-in-an-international-cirrhosis-cohort
#1
Jasmohan S Bajaj, Ramazan Idilman, Leila Mabudian, Matthew Hood, Andrew Fagan, Dilara Turan, Melanie B White, Fatih Karakaya, Jessica Wang, Rengül Atalay, Phillip B Hylemon, Edith A Gavis, Robert Brown, Leroy R Thacker, Chathur Acharya, Douglas M Heuman, Masoumeh Sikaroodi, Patrick M Gillevet
The relative ranking of cirrhosis-related deaths differs between high/middle-income countries. Gut microbiome is affected in cirrhosis and related to diet. Our aim was to determine the effect of differing dietary habits on gut microbiota and clinical outcomes. METHODS: Outpatient compensated/decompensated cirrhotics and controls from Turkey and USA underwent dietary and stool microbiota analysis. Cirrhotics were followed till 90-day hospitalizations. Shannon diversity and multi-variable determinants (Cox and binary logistic) of microbial diversity and hospitalizations were studied within/between groups...
January 19, 2018: Hepatology: Official Journal of the American Association for the Study of Liver Diseases
https://www.readbyqxmd.com/read/29350440/abrupt-burial-imparts-persistent-changes-to-the-bacterial-diversity-of-turbidite-associated-sediment-profiles
#2
B K Harrison, A Myrbo, B E Flood, J V Bailey
The emplacement of subaqueous gravity-driven sediment flows imposes a significant physical and geochemical impact on underlying sediment and microbial communities. Although previous studies have established lasting mineralogical and biological signatures of turbidite deposition, the response of bacteria and archaea within and beneath debris flows remains poorly constrained. Both bacterial cells associated with the underlying sediment and those attached to allochthonous material must respond to substantially altered environmental conditions and selective pressures...
January 19, 2018: Geobiology
https://www.readbyqxmd.com/read/29350297/microbial-communities-and-their-predicted-metabolic-functions-in-a-desiccating-acid-salt-lake
#3
Elena Zaikova, Kathleen C Benison, Melanie R Mormile, Sarah Stewart Johnson
The waters of Lake Magic in Western Australia are among the most geochemically extreme on Earth. This ephemeral saline lake is characterized by pH as low as 1.6 salinity as high as 32% total dissolved solids, and unusually complex geochemistry, including extremely high concentrations of aluminum, silica, and iron. We examined the microbial composition and putative function in this extreme acid brine environment by analyzing lake water, groundwater, and sediment samples collected during the austral summer near peak evapoconcentration...
January 19, 2018: Extremophiles: Life Under Extreme Conditions
https://www.readbyqxmd.com/read/29349837/human-specific-phages-infecting-enterococcus-host-strain-mw47-are-they-reliable-microbial-source-tracking-markers
#4
S E Purnell, J E Ebdon, H Wilkins, H D Taylor
AIM: The aim of this study was to determine the morphological diversity and environmental survival of human-specific phages infecting Enterococcus faecium host strain MW47, to support their use as microbial source tracking (MST) markers. METHODS AND RESULTS: Twenty phages capable of infecting strain MW47 were propagated and their morphologies determined using transmission electron microscopy (TEM), which revealed that a heterogeneous group of phages was able to infect strain MW47...
January 19, 2018: Journal of Applied Microbiology
https://www.readbyqxmd.com/read/29348922/taxonogenomic-description-of-four-new-clostridium-species-isolated-from-human-gut-clostridium-amazonitimonense-clostridium-merdae-clostridium-massilidielmoense-and-clostridium-nigeriense
#5
M T Alou, S Ndongo, L Frégère, N Labas, C Andrieu, M Richez, C Couderc, J-P Baudoin, J Abrahão, S Brah, A Diallo, C Sokhna, N Cassir, B La Scola, F Cadoret, D Raoult
Culturomics investigates microbial diversity of the human microbiome by combining diversified culture conditions, matrix-assisted laser desorption/ionization time-of-flight mass spectrometry and 16S rRNA gene identification. The present study allowed identification of four putative new Clostridium sensu stricto species: 'Clostridium amazonitimonense' strain LF2T, 'Clostridium massilidielmoense' strain MT26T, 'Clostridium nigeriense' strain Marseille-P2414T and 'Clostridium merdae' strain Marseille-P2953T, which we describe using the concept of taxonogenomics...
January 2018: New Microbes and New Infections
https://www.readbyqxmd.com/read/29348571/high-resolution-time-series-reveals-cohesive-but-short-lived-communities-in-coastal-plankton
#6
Antonio M Martin-Platero, Brian Cleary, Kathryn Kauffman, Sarah P Preheim, Dennis J McGillicuddy, Eric J Alm, Martin F Polz
Because microbial plankton in the ocean comprise diverse bacteria, algae, and protists that are subject to environmental forcing on multiple spatial and temporal scales, a fundamental open question is to what extent these organisms form ecologically cohesive communities. Here we show that although all taxa undergo large, near daily fluctuations in abundance, microbial plankton are organized into clearly defined communities whose turnover is rapid and sharp. We analyze a time series of 93 consecutive days of coastal plankton using a technique that allows inference of communities as modular units of interacting taxa by determining positive and negative correlations at different temporal frequencies...
January 18, 2018: Nature Communications
https://www.readbyqxmd.com/read/29346885/theoretical-microbial-ecology-without-species
#7
Mikhail Tikhonov
Ecosystems are commonly conceptualized as networks of interacting species. However, partitioning natural diversity of organisms into discrete units is notoriously problematic and mounting experimental evidence raises the intriguing question whether this perspective is appropriate for the microbial world. Here an alternative formalism is proposed that does not require postulating the existence of species as fundamental ecological variables and provides a naturally hierarchical description of community dynamics...
September 2017: Physical Review. E
https://www.readbyqxmd.com/read/29346586/plasflow-predicting-plasmid-sequences-in-metagenomic-data-using-genome-signatures
#8
Pawel S Krawczyk, Leszek Lipinski, Andrzej Dziembowski
Plasmids are mobile genetics elements that play an important role in the environmental adaptation of microorganisms. Although plasmids are usually analyzed in cultured microorganisms, there is a need for methods that allow for the analysis of pools of plasmids (plasmidomes) in environmental samples. To that end, several molecular biology and bioinformatics methods have been developed; however, they are limited to environments with low diversity and cannot recover large plasmids. Here, we present PlasFlow, a novel tool based on genomic signatures that employs a neural network approach for identification of bacterial plasmid sequences in environmental samples...
January 13, 2018: Nucleic Acids Research
https://www.readbyqxmd.com/read/29346344/development-of-immune-and-microbial-environments-is-independently-regulated-in-the-mammary-gland
#9
K Niimi, K Usami, Y Fujita, M Abe, M Furukawa, Y Suyama, Y Sakai, M Kamioka, N Shibata, E J Park, S Sato, H Kiyono, H Yoneyama, H Kitazawa, K Watanabe, T Nochi, H Aso
Breastfeeding is important for mammals, providing immunological and microbiological advantages to neonates, together with the nutritional supply from the mother. However, the mechanisms of this functional diversity in the mammary gland remain poorly characterized. Here, we show that, similar to the gastrointestinal tract, the mammary gland develops immune and microbial environments consisting of immunoglobulin A (IgA) and the microflora, respectively, both of which are important for protecting neonates and the mother from infectious diseases...
December 20, 2017: Mucosal Immunology
https://www.readbyqxmd.com/read/29345518/bacterial-pathogenesis-and-interleukin-17-interconnecting-mechanisms-of-immune-regulation-host-genetics-and-microbial-virulence-that-influence-severity-of-infection
#10
Michelle N Chamoun, Antje Blumenthal, Matthew J Sullivan, Mark A Schembri, Glen C Ulett
Interleukin-17 (IL-17) is a pro-inflammatory cytokine involved in the control of many different disorders, including autoimmune, oncogenic, and diverse infectious diseases. In the context of infectious diseases, IL-17 protects the host against various classes of microorganisms but, intriguingly, can also exacerbate the severity of some infections. The regulation of IL-17 expression stems, in part, from the activity of Interleukin-23 (IL-23), which drives the maturation of different classes of IL-17-producing cells that can alter the course of infection...
January 18, 2018: Critical Reviews in Microbiology
https://www.readbyqxmd.com/read/29345191/enhanced-sulfide-removal-and-bioelectricity-generation-in-microbial-fuel-cells-with-anodes-modified-by-vertically-oriented-nanosheets
#11
Meng Yang, Yuezhi Zhong, Baogang Zhang, Jiaxin Shi, Xueyang Huang, Yi Xing, Lin Su, Huipeng Liu, Alistair G L Borthwick
Anode materials and structures are of critical importance for microbial fuel cells (MFCs) recovering energy from toxic substrates. Carbon-fiber-felt anodes modified by layers of vertically oriented TiO2 and Fe2O3 nanosheets respectively were applied in present study. Enhanced sulfide removal efficiencies (both over 90%) were obtained after 48 h operation, with maximum power densities improved by 1.53 and 1.36 folds compared with MFCs with raw carbon-fiber-felt anode, respectively. The modified anodes provided more active sites for microbial adhesion with increasing biomass densities...
January 18, 2018: Environmental Technology
https://www.readbyqxmd.com/read/29345036/application-of-molecular-tools-to-elucidate-the-microbiota-of-seafood
#12
Paloma de Almeida Rodrigues, Rafaela Gomes Ferrari, Carlos Adam Conte Junior
The aim of this review is to present the methodologies currently applied to identify microbiota and pathogens transmitted to humans through seafood consumption, focusing on molecular techniques and pointing out their importance, advantages, disadvantages, and applicability. Knowledge of available techniques allows researchers to identify which technique best fits their expectations. With such discernment, it will be possible to infer which disadvantages will be present and, therefore, not interfering with the final result...
January 18, 2018: Journal of Applied Microbiology
https://www.readbyqxmd.com/read/29344709/microbial-characterization-of-methanogenic-and-iron-reducing-consortium-in-reactors-with-polychlorinated-biphenyls
#13
Mara R de Lima E Silva, Regiane C Correa, Isabel K Sakamoto, Maria B A Varesche
Recent papers have confirmed current environmental pollution and the continuous release of polychlorinated biphenyls (PCBs) despite the prohibition of its manufacture worldwide. As the dehalogenating microorganisms are able to remove halogens from various analogous compounds, the characterization of PCB metabolisms can improve the degradation of similar compounds. Thus, this study extensively evaluated the microbial community developed in methanogenic and iron-reducing reactors. The horizontal-flow anaerobic reactor (HAIB) with real waste of Aroclor (1 mL L-1) was fed with mineral medium, ethanol, and sodium formate...
January 17, 2018: Current Microbiology
https://www.readbyqxmd.com/read/29344695/succession-of-microbial-communities-and-changes-of-incremental-oil-in-a-post-polymer-flooded-reservoir-with-nutrient-stimulation
#14
Peike Gao, Guoqiang Li, Jianjun Le, Xiaobo Liu, Fang Liu, Ting Ma
Further exploitation of the residual oil underground in post-polymer flooded reservoirs is attractive and challengeable. In this study, indigenous microbial enhanced oil recovery (IMEOR) in a post-polymer flooded reservoir was performed. The succession of microbial communities was revealed by high-throughput sequencing of 16S rRNA genes and changes of incremental oil were analyzed. The results indicated that the abundances of reservoir microorganisms significantly increased, with alpha diversities decreased in the IMEOR process...
January 17, 2018: Applied Microbiology and Biotechnology
https://www.readbyqxmd.com/read/29341956/microbiome-associated-with-denture-malodour
#15
S Yitzhaki, L Reshef, U Gophna, M Rosenberg, N Sterer
In the past, our inability to cultivate most of the oral microorganisms has limited our view of this complex ecosystem. In the present study, we utilized next generation deep sequencing techniques to revisit the microbiome associated with denture malodour, a growing field with the rise in life expectancy. The study population comprised 26 full dentures patients (mean age 71 ± 6.4, 10 males, 16 females) who visited the Tel Aviv University dental geriatric clinic. Denture malodour was rated organoleptically by a single odour judge, and dentures scoring 2 and above were considered malodour positive...
January 17, 2018: Journal of Breath Research
https://www.readbyqxmd.com/read/29341170/identification-and-characterization-of-a-new-three-component-nicotinic-acid-hydroxylase-nahab1-b2-from-pusillimonas-sp-strain-t2
#16
Mei Yuan, Yanting Zhang, Lingling Zhao, Yun Ma, Qin He, Jian He, Jiguo Qiu
Nicotinic acid (NA) is ubiquitous in nature and its microbial degradation mechanisms are diverse. In this study, Pusillimonas sp. strain T2 was found to be capable of utilizing NA as sole carbon and nitrogen sources. This strain could completely degrade 300 mg L-1 NA within 3.5 h at 30 °C and pH 7.0. And one of the degradation intermediate of NA was identified as 6-hydroxynicotinic acid (6HNA). The draft genome sequences of strain T2 was determined to have a total length of 3.3 M bp and 3,054 proteins were predicted...
January 16, 2018: Letters in Applied Microbiology
https://www.readbyqxmd.com/read/29339825/corallivory-and-the-microbial-debacle-in-two-branching-scleractinians
#17
Yvan Bettarel, Sébastien Halary, Jean-Christophe Auguet, Thanh Chi Mai, Ngoc Van Bui, Thierry Bouvier, Patrice Got, Corinne Bouvier, Sonia Monteil-Bouchard, Desnues Christelle
The grazing activity by specific marine organisms represents a growing threat to the survival of many scleractinian species. For example, the recent proliferation of the corallivorous gastropod Drupella now constitutes a critical case in all South-East Asian waters. If the damaging effects caused by this marine snail on coral polyps are relatively well known, the indirect incidence of predation on coral microbial associates is still obscure and might also potentially impair coral health. In this study, we compared the main ecological traits of coral-associated bacterial and viral communities living in the mucus layer of Acropora formosa and Acropora millepora, of healthy and predated individuals (i...
January 16, 2018: ISME Journal
https://www.readbyqxmd.com/read/29339824/oral-microbiota-of-periodontal-health-and-disease-and-their-changes-after-nonsurgical-periodontal-therapy
#18
Casey Chen, Chris Hemme, Joan Beleno, Zhou Jason Shi, Daliang Ning, Yujia Qin, Qichao Tu, Michael Jorgensen, Zhili He, Liyou Wu, Jizhong Zhou
This study examined the microbial diversity and community assembly of oral microbiota in periodontal health and disease and after nonsurgical periodontal treatment. The V4 region of 16S rRNA gene from DNA of 238 saliva and subgingival samples of 21 healthy and 48 diseased subjects was amplified and sequenced. Among 1979 OTUs identified, 28 were overabundant in diseased plaque. Six of these taxa were also overabundant in diseased saliva. Twelve OTUs were overabundant in healthy plaque. There was a trend for disease-associated taxa to decrease and health-associated taxa to increase after treatment with notable variations among individual sites...
January 16, 2018: ISME Journal
https://www.readbyqxmd.com/read/29339554/synthetic-biology-strategies-for-improving-microbial-synthesis-of-green-biopolymers
#19
Lisa A Anderson, M Ahsanul Islam, Kristala L J Prather
Polysaccharide-based biopolymers have many material properties relevant to industrial and medical uses, including as drug delivery agents, wound healing adhesives, and food additives and stabilizers. Traditionally, polysaccharides are obtained from natural sources. Microbial synthesis offers an attractive alternative for sustainable production of tailored biopolymers. Here, we review synthetic biology strategies for select "green" biopolymers: cellulose, alginate, chitin, chitosan, and hyaluronan. Microbial production pathways, opportunities for pathway yield improvements, and advances in microbial engineering of biopolymers in various hosts are discussed...
January 16, 2018: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/29338764/cropping-practices-manipulate-abundance-patterns-of-root-and-soil-microbiome-members-paving-the-way-to-smart-farming
#20
Kyle Hartman, Marcel G A van der Heijden, Raphaël A Wittwer, Samiran Banerjee, Jean-Claude Walser, Klaus Schlaeppi
BACKGROUND: Harnessing beneficial microbes presents a promising strategy to optimize plant growth and agricultural sustainability. Little is known to which extent and how specifically soil and plant microbiomes can be manipulated through different cropping practices. Here, we investigated soil and wheat root microbial communities in a cropping system experiment consisting of conventional and organic managements, both with different tillage intensities. RESULTS: While microbial richness was marginally affected, we found pronounced cropping effects on community composition, which were specific for the respective microbiomes...
January 16, 2018: Microbiome
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"