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"Microbial ecology"

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https://www.readbyqxmd.com/read/28812645/marine-microbial-ecology-life-after-volcanic-destruction
#1
David L Kirchman
No abstract text is available yet for this article.
April 24, 2017: Nature ecology & evolution
https://www.readbyqxmd.com/read/28811633/rapid-replacement-by-non-vaccine-pneumococcal-serotypes-may-mitigate-the-impact-of-the-pneumococcal-conjugate-vaccine-on-nasopharyngeal-bacterial-ecology
#2
Brenda Kwambana-Adams, Blake Hanson, Archibald Worwui, Schadrac Agbla, Ebenezer Foster-Nyarko, Fatima Ceesay, Chinelo Ebruke, Uzochukwu Egere, Yanjiao Zhou, Maze Ndukum, Erica Sodergren, Michael Barer, Richard Adegbola, George Weinstock, Martin Antonio
There is growing concern that interventions that alter microbial ecology can adversely affect health. We characterised the impact of the seven-valent pneumococcal conjugate vaccine (PCV7) on pneumococcal carriage and the bacterial component of the nasopharyngeal microbiome during infancy. Newborns were recruited into three groups as follows: Group1 (n = 33) was the control group and comprised infants who received PCV7 after 6 months and came from unvaccinated communities. Group 2 (n = 30) came from unvaccinated communities and Group 3 (n = 39) came from vaccinated communities...
August 15, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28810907/schr%C3%A3-dinger-s-microbes-tools-for-distinguishing-the-living-from-the-dead-in-microbial-ecosystems
#3
REVIEW
Joanne B Emerson, Rachel I Adams, Clarisse M Betancourt Román, Brandon Brooks, David A Coil, Katherine Dahlhausen, Holly H Ganz, Erica M Hartmann, Tiffany Hsu, Nicholas B Justice, Ivan G Paulino-Lima, Julia C Luongo, Despoina S Lymperopoulou, Cinta Gomez-Silvan, Brooke Rothschild-Mancinelli, Melike Balk, Curtis Huttenhower, Andreas Nocker, Parag Vaishampayan, Lynn J Rothschild
While often obvious for macroscopic organisms, determining whether a microbe is dead or alive is fraught with complications. Fields such as microbial ecology, environmental health, and medical microbiology each determine how best to assess which members of the microbial community are alive, according to their respective scientific and/or regulatory needs. Many of these fields have gone from studying communities on a bulk level to the fine-scale resolution of microbial populations within consortia. For example, advances in nucleic acid sequencing technologies and downstream bioinformatic analyses have allowed for high-resolution insight into microbial community composition and metabolic potential, yet we know very little about whether such community DNA sequences represent viable microorganisms...
August 16, 2017: Microbiome
https://www.readbyqxmd.com/read/28810737/identification-of-the-colicin-v-bacteriocin-gene-cluster-by-functional-screening-of-a-human-microbiome-metagenomic-library
#4
Louis Cohen, Sun Han, Yun-Han Huang, Sean F Brady
The forces that shape human microbial ecology are complex. It is likely, that human microbiota, similarly to other microbiomes, use antibiotics as one way to establish an ecological niche. In this study, we use functional metagenomics to identify human microbial gene clusters that encode for antibiotic functions. Screening of a metagenomic library prepared from a healthy patient stool sample led to the identification of a family of clones with inserts that are 99% identical to a region of a virulence plasmid found in avian pathogenic Escherichia coli...
August 15, 2017: ACS Infectious Diseases
https://www.readbyqxmd.com/read/28805354/microbial-ecology-based-engineering-of-microbial-electrochemical-technologies
#5
REVIEW
Christin Koch, Benjamin Korth, Falk Harnisch
Microbial ecology is devoted to the understanding of dynamics, activity and interaction of microorganisms in natural and technical ecosystems. Bioelectrochemical systems represent important technical ecosystems, where microbial ecology is of highest importance for their function. However, whereas aspects of, for example, materials and reactor engineering are commonly perceived as highly relevant, the study and engineering of microbial ecology are significantly underrepresented in bioelectrochemical systems...
August 14, 2017: Microbial Biotechnology
https://www.readbyqxmd.com/read/28801990/degradation-of-euptox-a-by-tannase-producing-rumen-bacteria-from-migratory-goats
#6
D Sharma, G Mal, A Kannan, R Bhar, R Sharma, B Singh
AIMS: The gut microbiota capable of degrading plant biomass and anti-nutritional phytometabolites are of immense importance. This study reports isolation and characterization of tannase-producing rumen bacteria that could also degrade euptox A (9-oxo-10,11-dehydroageraphorone) present in Eupatorium adenophorum (Spreng). METHODS AND RESULTS: Migratory Gaddi goats were selected as source of inoculums for isolating rumen bacteria with ability to produce tannase which catalyzes degradation of hydrolysable tannins (HTs)...
August 12, 2017: Journal of Applied Microbiology
https://www.readbyqxmd.com/read/28801232/nlrp6-and-asc-dependent-inflammasomes-do-not-shape-the-commensal-gut-microbiota-composition
#7
Michail Mamantopoulos, Francesca Ronchi, Filip Van Hauwermeiren, Sara Vieira-Silva, Bahtiyar Yilmaz, Liesbet Martens, Yvan Saeys, Stefan K Drexler, Amir S Yazdi, Jeroen Raes, Mohamed Lamkanfi, Kathy D McCoy, Andy Wullaert
The gut microbiota regulate susceptibility to multiple human diseases. The Nlrp6-ASC inflammasome is widely regarded as a hallmark host innate immune axis that shapes the gut microbiota composition. This notion stems from studies reporting dysbiosis in mice lacking these inflammasome components when compared with non-littermate wild-type animals. Here, we describe microbial analyses in inflammasome-deficient mice while minimizing non-genetic confounders using littermate-controlled Nlrp6-deficient mice and ex-germ-free littermate-controlled ASC-deficient mice that were all allowed to shape their gut microbiota naturally after birth...
August 15, 2017: Immunity
https://www.readbyqxmd.com/read/28796186/maldi-tof-ms-for-the-identification-of-cultivable-organic-degrading-bacteria-in-contaminated-groundwater-near-unconventional-natural-gas-extraction-sites
#8
Inês C Santos, Misty S Martin, Doug D Carlton, Catarina L Amorim, Paula M L Castro, Zacariah L Hildenbrand, Kevin A Schug
Groundwater quality and quantity is of extreme importance as it is a source of drinking water in the United States. One major concern has emerged due to the possible contamination of groundwater from unconventional oil and natural gas extraction activities. Recent studies have been performed to understand if these activities are causing groundwater contamination, particularly with respect to exogenous hydrocarbons and volatile organic compounds. The impact of contaminants on microbial ecology is an area to be explored as alternatives for water treatment are necessary...
August 10, 2017: Microorganisms
https://www.readbyqxmd.com/read/28783713/aging-and-sarcopenia-associate-with-specific-interactions-between-gut-microbes-serum-biomarkers-and-host-physiology-in-rats
#9
Jay Siddharth, Anirikh Chakrabarti, Alice Pannérec, Sonia Karaz, Delphine Morin-Rivron, Mojgan Masoodi, Jerome N Feige, Scott James Parkinson
The microbiome has been demonstrated to play an integral role in the maintenance of many aspects of health that are also associated with aging. In order to identify areas of potential exploration and intervention, we simultaneously characterized age-related alterations in gut microbiome, muscle physiology and serum proteomic and lipidomic profiles in aged rats to define an integrated signature of the aging phenotype. We demonstrate that aging skews the composition of the gut microbiome, in particular by altering the Sutterella to Barneseilla ratio, and alters the metabolic potential of intestinal bacteria...
July 17, 2017: Aging
https://www.readbyqxmd.com/read/28777379/metabolic-and-spatio-taxonomic-response-of-uncultivated-seafloor-bacteria-following-the-deepwater-horizon-oil-spill
#10
K M Handley, Y M Piceno, P Hu, L M Tom, O U Mason, G L Andersen, J K Jansson, J A Gilbert
The release of 700 million liters of oil into the Gulf of Mexico over a few months in 2010 produced dramatic changes in the microbial ecology of the water and sediment. Here, we reconstructed the genomes of 57 widespread uncultivated bacteria from post-spill deep-sea sediments, and recovered their gene expression pattern across the seafloor. These genomes comprised a common collection of bacteria that were enriched in heavily affected sediments around the wellhead. Although rare in distal sediments, some members were still detectable at sites up to 60 km away...
August 4, 2017: ISME Journal
https://www.readbyqxmd.com/read/28771569/disruption-in-the-cecal-microbiota-of-chickens-challenged-with-clostridium-perfringens-and-other-factors-was-alleviated-by-bacillus-licheniformis-supplementation
#11
Yicen Lin, Shuai Xu, Dong Zeng, Xueqin Ni, Mengjia Zhou, Yan Zeng, Hesong Wang, Yi Zhou, Hui Zhu, Kangcheng Pan, Guangyao Li
Clostridium perfringens can induce necrotic enteritis of chickens, which causes large economic losses every year. Bacillus licheniformis, a probiotic, can inhibit the growth of pathogenic bacteria such as Clostridium perfringens, thereby improving the health status of chickens. However, from a microbial ecology perspective, the mechanisms by which alterations to the gut microbiota improve health remain unknown. In this study, we used Illumina MiSeq sequencing to investigate the cecal microbiota of a negative control group (NC), a C...
2017: PloS One
https://www.readbyqxmd.com/read/28769875/a-stoichioproteomic-analysis-of-samples-from-the-human-microbiome-project
#12
Briana Vecchio-Pagan, Sharon Bewick, Kumar Mainali, David K Karig, William F Fagan
Ecological stoichiometry (ES) uses organism-specific elemental content to explain differences in species life histories, species interactions, community organization, environmental constraints and even ecosystem function. Although ES has been successfully applied to a range of different organisms, most emphasis on microbial ecological stoichiometry focuses on lake, ocean, and soil communities. With the recent advances in human microbiome research, however, large amounts of data are being generated that describe differences in community composition across body sites and individuals...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28768551/feed-additive-probiotics-accelerate-yet-antibiotics-delay-intestinal-microbiota-maturation-in-broiler-chicken
#13
Pengfei Gao, Chen Ma, Zheng Sun, Lifeng Wang, Shi Huang, Xiaoquan Su, Jian Xu, Heping Zhang
BACKGROUND: Reducing antibiotics overuse in animal agriculture is one key in combat against the spread of antibiotic resistance. Probiotics are a potential replacement of antibiotics in animal feed; however, it is not clear whether and how probiotics and antibiotics differ in impact on physiology and microbial ecology of host animals. RESULTS: Host phenotype and fecal microbiota of broilers with either antibiotics or probiotics as feed additive were simultaneously sampled at four time points from birth to slaughter and then compared...
August 3, 2017: Microbiome
https://www.readbyqxmd.com/read/28758303/the-periodontal-war-microbes-and-immunity
#14
REVIEW
Jeffrey L Ebersole, Dolph Dawson, Pinar Emecen-Huja, Radhakrishnan Nagarajan, Katherine Howard, Martha E Grady, Katherine Thompson, Rebecca Peyyala, Ahmad Al-Attar, Kathryn Lethbridge, Sreenatha Kirakodu, Octavio A Gonzalez
Maintenance of periodontal health or transition to a periodontal lesion reflects the continuous and ongoing battle between the vast microbial ecology in the oral cavity and the array of resident and emigrating inflammatory/immune cells in the periodontium. This war clearly signifies many 'battlefronts' representing the interface of the mucosal-surface cells with the dynamic biofilms composed of commensal and potential pathogenic species, as well as more recent knowledge demonstrating active invasion of cells and tissues of the periodontium leading to skirmishes in connective tissue, the locality of bone and even in the local vasculature...
October 2017: Periodontology 2000
https://www.readbyqxmd.com/read/28755810/bacterial-community-structure-in-the-intertidal-biofilm-along-the-yangtze-estuary-china
#15
Xing-Pan Guo, Zuo-Shun Niu, Da-Pei Lu, Jing-Nan Feng, Yu-Ru Chen, Fei-Yun Tou, Min Liu, Yi Yang
In this study, the 16S rRNA-based Illumina MiSeq sequencing was used to investigate the bacterial community structure and composition of intertidal biofilm taken along the Yangtze Estuary. The results showed that 680,721 valid sequences of seven samples were assigned to 147,239 operational taxonomic units, which belonged to 49 phyla, 246 family and 314 genera. Compared to other studies on water and sediments in the study area, biofilms showed highest index of bacterial diversity and abundances. At different taxonomic levels, both dominant taxa and their abundances varied among the seven samples, with Proteobacteria as the dominant phylum in general...
July 26, 2017: Marine Pollution Bulletin
https://www.readbyqxmd.com/read/28748040/effect-of-erythritol-on-microbial-ecology-of-in-vitro-gingivitis-biofilms
#16
Marleen Marga Janus, Catherine Minke Charlotte Volgenant, Bernd Willem Brandt, Mark Johannes Buijs, Bart Jan Frederik Keijser, Wim Crielaard, Egija Zaura, Bastiaan Philip Krom
Gingivitis is one of the most common oral infections in humans. While sugar alcohols such as erythritol are suggested to have caries-preventive properties, it may also have beneficial effects in prevention of gingivitis by preventing maturation of oral biofilms. The aim of this study was to assess the effect of erythritol on the microbial ecology and the gingivitis phenotype of oral microcosms. Biofilms were inoculated with stimulated saliva from 20 healthy donors and grown in a gingivitis model in the continuous presence of 0 (control group), 5, and 10% erythritol...
2017: Journal of Oral Microbiology
https://www.readbyqxmd.com/read/28744266/nutrient-and-rainfall-additions-shift-phylogenetically-estimated-traits-of-soil-microbial-communities
#17
Kelly Gravuer, Anu Eskelinen
Microbial traits related to ecological responses and functions could provide a common currency facilitating synthesis and prediction; however, such traits are difficult to measure directly for all taxa in environmental samples. Past efforts to estimate trait values based on phylogenetic relationships have not always distinguished between traits with high and low phylogenetic conservatism, limiting reliability, especially in poorly known environments, such as soil. Using updated reference trees and phylogenetic relationships, we estimated two phylogenetically conserved traits hypothesized to be ecologically important from DNA sequences of the 16S rRNA gene from soil bacterial and archaeal communities...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28744257/abundance-and-distribution-of-microbial-cells-and-viruses-in-an-alluvial-aquifer
#18
Donald Pan, Jason Nolan, Kenneth H Williams, Mark J Robbins, Karrie A Weber
Viruses are the most abundant biological entity on Earth and their interactions with microbial communities are recognized to influence microbial ecology and impact biogeochemical cycling in various ecosystems. While the factors that control the distribution of viruses in surface aquatic environments are well-characterized, the abundance and distribution of continental subsurface viruses with respect to microbial abundance and biogeochemical parameters have not yet been established. In order to begin to understand the factors governing virus distribution in subsurface environments, we assessed microbial cell and virus abundance in groundwater concurrent with groundwater chemistry in a uranium impacted alluvial aquifer adjoining the Colorado River near Rifle, CO...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28742878/assessment-of-the-effect-of-enteromorpha-prolifera-on-bacterial-community-structures-in-aquaculture-environment
#19
Guorong Lin, Fulin Sun, Chunzhong Wang, Li Zhang, Xinzhong Zhang
In recent years, Enteromorpha prolifera blooms had serious impacts on costal environments and fisheries in China. Nevertheless, the effects of E. prolifera on microbial ecology remain unknown. In this study, for the first time, an Illumina sequencing analysis was used to investigate bacterial communities in source water, aquaculture ponds with E. prolifera, and an aquaculture pond in which E. prolifera -free. Principal coordinate and phylogenic analyses revealed obvious differences among the bacterial communities in the pond water with and without E...
2017: PloS One
https://www.readbyqxmd.com/read/28732554/microbial-ecology-and-process-technology-of-sourdough-fermentation
#20
Luc De Vuyst, Simon Van Kerrebroeck, Frédéric Leroy
From a microbiological perspective, sourdough is to be considered as a specific and stressful ecosystem, harboring yeasts and lactic acid bacteria (LAB), that is used for the production of baked goods. With respect to the metabolic impact of the sourdough microbiota, acidification (LAB), flavor formation (LAB and yeasts), and leavening (yeasts and heterofermentative LAB species) are most noticeable. Three distinct types of sourdough fermentation processes can be discerned based on the inocula applied, namely backslopped ones (type 1), those initiated with starter cultures (type 2), and those initiated with a starter culture followed by backslopping (type 3)...
2017: Advances in Applied Microbiology
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