scholarly journals Microbial communities of the Lemon Creek Glacier show subtle structural variation yet stable phylogenetic composition over space and time

2015 ◽  
Vol 6 ◽  
Author(s):  
Cody S. Sheik ◽  
Emily I. Stevenson ◽  
Paul A. Den Uyl ◽  
Carli A. Arendt ◽  
Sarah M. Aciego ◽  
...  
Keyword(s):  
Microbial Communities ◽  
Structural Variation ◽  
Space And Time ◽  
Phylogenetic Composition

scholarly journals Quantitative image analysis of microbial communities with BiofilmQ

2021 ◽  
Author(s):  
Raimo Hartmann ◽  
Hannah Jeckel ◽  
Eric Jelli ◽  
Praveen K. Singh ◽  
Sanika Vaidya ◽  
...  
Keyword(s):  
Image Analysis ◽  
Microbial Communities ◽  
Dimensional Space ◽  
Three Dimensional ◽  
Software Tool ◽  
Image Cytometry ◽  
Quantitative Image Analysis ◽  
Space And Time ◽  
Quantitative Image ◽  
Three Dimensional Space

AbstractBiofilms are microbial communities that represent a highly abundant form of microbial life on Earth. Inside biofilms, phenotypic and genotypic variations occur in three-dimensional space and time; microscopy and quantitative image analysis are therefore crucial for elucidating their functions. Here, we present BiofilmQ—a comprehensive image cytometry software tool for the automated and high-throughput quantification, analysis and visualization of numerous biofilm-internal and whole-biofilm properties in three-dimensional space and time.

scholarly journals Organic matter processing by microbial communities throughout the Atlantic water column as revealed by metaproteomics

2017 ◽  
Vol 115 (3) ◽  
pp. E400-E408 ◽  
Author(s):  
Kristin Bergauer ◽  
Antonio Fernandez-Guerra ◽  
Juan A. L. Garcia ◽  
Richard R. Sprenger ◽  
Ramunas Stepanauskas ◽  
...  
Keyword(s):  
Organic Matter ◽  
Microbial Community ◽  
Microbial Communities ◽  
Water Column ◽  
Compatible Solutes ◽  
Deep Ocean ◽  
Euphotic Zone ◽  
Atlantic Water ◽  
Phylogenetic Composition ◽  
Solute Transporters

The phylogenetic composition of the heterotrophic microbial community is depth stratified in the oceanic water column down to abyssopelagic layers. In the layers below the euphotic zone, it has been suggested that heterotrophic microbes rely largely on solubilized particulate organic matter as a carbon and energy source rather than on dissolved organic matter. To decipher whether changes in the phylogenetic composition with depth are reflected in changes in the bacterial and archaeal transporter proteins, we generated an extensive metaproteomic and metagenomic dataset of microbial communities collected from 100- to 5,000-m depth in the Atlantic Ocean. By identifying which compounds of the organic matter pool are absorbed, transported, and incorporated into microbial cells, intriguing insights into organic matter transformation in the deep ocean emerged. On average, solute transporters accounted for 23% of identified protein sequences in the lower euphotic and ∼39% in the bathypelagic layer, indicating the central role of heterotrophy in the dark ocean. In the bathypelagic layer, substrate affinities of expressed transporters suggest that, in addition to amino acids, peptides and carbohydrates, carboxylic acids and compatible solutes may be essential substrates for the microbial community. Key players with highest expression of solute transporters were Alphaproteobacteria, Gammaproteobacteria, and Deltaproteobacteria, accounting for 40%, 11%, and 10%, respectively, of relative protein abundances. The in situ expression of solute transporters indicates that the heterotrophic prokaryotic community is geared toward the utilization of similar organic compounds throughout the water column, with yet higher abundances of transporters targeting aromatic compounds in the bathypelagic realm.

scholarly journals Characterizing microbial communities through space and time

2012 ◽  
Vol 23 (3) ◽  
pp. 431-436 ◽  
Author(s):  
Antonio Gonzalez ◽  
Andrew King ◽  
Michael S Robeson II ◽  
Sejin Song ◽  
Ashley Shade ◽  
...  
Keyword(s):  
Microbial Communities ◽  
Space And Time

A peek in the micro-sized world: a review of design principles, engineering tools, and applications of engineered microbial community

2020 ◽  
Vol 48 (2) ◽  
pp. 399-409
Author(s):  
Baizhen Gao ◽  
Rushant Sabnis ◽  
Tommaso Costantini ◽  
Robert Jinkerson ◽  
Qing Sun
Keyword(s):  
Microbial Community ◽  
Microbial Communities ◽  
Environmental Remediation ◽  
Real Life ◽  
Design Principles ◽  
Microbial Interactions ◽  
Potential Applications ◽  
New Gene ◽  
Global Biogeochemical Cycles ◽  
Synthetic Microbial Communities

Microbial communities drive diverse processes that impact nearly everything on this planet, from global biogeochemical cycles to human health. Harnessing the power of these microorganisms could provide solutions to many of the challenges that face society. However, naturally occurring microbial communities are not optimized for anthropogenic use. An emerging area of research is focusing on engineering synthetic microbial communities to carry out predefined functions. Microbial community engineers are applying design principles like top-down and bottom-up approaches to create synthetic microbial communities having a myriad of real-life applications in health care, disease prevention, and environmental remediation. Multiple genetic engineering tools and delivery approaches can be used to ‘knock-in' new gene functions into microbial communities. A systematic study of the microbial interactions, community assembling principles, and engineering tools are necessary for us to understand the microbial community and to better utilize them. Continued analysis and effort are required to further the current and potential applications of synthetic microbial communities.

Languages in Space and Time

2020 ◽  
Author(s):  
Marco Patriarca ◽  
Els Heinsalu ◽  
Jean Leó Leonard
Keyword(s):  
Space And Time

On Space and Time

2008 ◽  
Author(s):  
Alain Connes ◽  
Michael Heller ◽  
Roger Penrose ◽  
John Polkinghorne ◽  
Andrew Taylor
Keyword(s):  
Space And Time

Does the EEG Reflect Space- and Time-Coded Cerebral Functions?

1979 ◽  
Vol 24 (10) ◽  
pp. 824-824 ◽  
Author(s):  
DONALD B. LINDSLEY
Keyword(s):  
Space And Time
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