Results 21 to 30 of about 3,263,643 (290)

Phylogenetic reconciliation:Making the most of genomes to understand microbial ecology and evolution [PDF]

In recent years, phylogenetic reconciliation has emerged as a promising approach for studying microbial ecology and evolution. The core idea is to model how gene trees evolve along a species tree, and to explain differences between them via evolutionary ...
Davín, Adrián A., Williams, Tom A, Eme, L., Davin, Adrian A, Woodcroft, B.J., Wahl, Noah A, Davin, Adrian, Sheridan, P.O., Gubry-Rangin, C., Szánthó, Lénárd L, Wahl, Noah, Szantho, Lenard, Szöllősi, Gergely J., Stamatakis, A., Spang, A., Gubry-Rangin, Cécile, Soo, R.M., Woodcroft, Ben, Szöllősi, Gergely, Soo, Rochelle M., Spang, Anja, Williams, T.A., Hugenholtz, P., Soo, Rochelle, Sheridan, Paul, Williams, Tom, Eme, Laura, Davin, A.A., Wahl, N.A., Szánthó, L.L., Sheridan, Paul O, Wahl, Noah A., Stamatakis, Alexandros, Woodcroft, Ben J., Hugenholtz, Philip, Woodcroft, Ben J, Szöllősi, G.J., Soo, Rochelle M, Szöllősi, Gergely J   +38 more
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Cell-free extracellular enzymatic activity is linked to seasonal temperature changes: a case study in the Baltic Sea [PDF]

Biogeosciences, 2016
Extracellular enzymatic activities (EEAs) are a crucial step in the degradation of organic matter. Dissolved (cell-free) extracellular enzymes in seawater can make up a significant contribution of the bulk EEA.
F. Baltar, C. Legrand, J. Pinhassi
doaj   +1 more source

Directed Evolution of Microbial Communities

Annual Review of Biophysics, 2020
Directed evolution is a form of artificial selection that has been used for decades to find biomolecules and organisms with new or enhanced functional traits. Directed evolution can be conceptualized as a guided exploration of the genotype–phenotype map, where genetic variants with desirable phenotypes are first selected and then mutagenized to search ...
Rebolleda-Gomez, Maria, Chang, Chang-Yu, Estrela, Sylvie, Vila, Jean, Sanchez, Alvaro, Diaz-Colunga, Juan   +5 more
openaire   +6 more sources

Phylogenomic Insights into Diversity and Evolution of Nonpathogenic Xanthomonas Strains Associated with Citrus

mSphere, 2020
Xanthomonas species are primarily known as a group of phytopathogens infecting diverse plants. Recent molecular studies reveal the existence of potential novel species and strains of Xanthomonas following a nonpathogenic lifestyle.
Kanika Bansal, Sanjeet Kumar, Prabhu B. Patil   +2 more
doaj   +1 more source

Shifts in coastal sediment oxygenation cause pronounced changes in microbial community composition and associated metabolism

Microbiome, 2017
Background A key characteristic of eutrophication in coastal seas is the expansion of hypoxic bottom waters, often referred to as ‘dead zones’. One proposed remediation strategy for coastal dead zones in the Baltic Sea is to mix the water column using ...
Elias Broman, Johanna Sjöstedt, Jarone Pinhassi, Mark Dopson   +3 more
doaj   +1 more source

Airborne bacterial populations above desert soils of the McMurdo Dry Valleys, Antarctica [PDF]

, 2014
Bacteria are assumed to disperse widely via aerosolized transport due to their small size and resilience. The question of microbial endemicity in isolated populations is directly related to the level of airborne exogenous inputs, yet this has proven hard
Bottos, Eric M., Pointing, Stephen B., Stephen C. Cary, Cary, S. Craig, Stephen B. Pointing, Peyman Zawar-Reza, Woo, Anthony C., Zawar-Reza, Peyman, Eric M. Bottos, Anthony C. Woo   +9 more
core   +1 more source

The Fennoscandian Shield deep terrestrial virosphere suggests slow motion ‘boom and burst’ cycles

Communications Biology, 2021
Karin Holmfeldt et al. sequence metagenomes and metatranscriptomes of viruses in deep groundwaters down to 448 m below the surface. The results reveal ecological dynamics of viruses including slow motion ‘boom and burst’ cycles and a ‘kill the winner ...
Karin Holmfeldt, Emelie Nilsson, Domenico Simone, Margarita Lopez-Fernandez, Xiaofen Wu, Ino de Bruijn, Daniel Lundin, Anders F. Andersson, Stefan Bertilsson, Mark Dopson   +9 more
doaj   +1 more source

Microbial community development in a dynamic gut model is reproducible, colon region specific, and selective for Bacteroidetes and Clostridium cluster IX [PDF]

, 2010
Dynamic, multicompartment in vitro gastrointestinal simulators are often used to monitor gut microbial dynamics and activity. These reactors need to harbor a microbial community that is stable upon inoculation, colon region specific, and relevant to in ...
Marzorati, M., Sam Possemiers, Sahar El Aidy, Kleerebezem, M., Verstraete, Willy, Smidt, H., Marzorati, Massimo, Philippe Gérard, Rabot, S., Charlotte Grootaert, Verstraete, W., Aidy, S.F., El, Erwin Zoetendal, Hauke Smidt, Possemiers, Sam, Zoetendal, Erwin, Kleerebezem, Michiel, van der Wiele, T., Sylvie Rabot, Grootaert, C., Michiel Kleerebezem, Possemiers, S., Massimo Marzorati, Derrien, Muriel, Pieter Van den Abbeele, Tom Van de Wiele, Derrien, M.M.N., Rabot, Sylvie, Grootaert, Charlotte, van den Abbeele, P., Bruneau, A., Wiele, T., van der, Willy Verstraete, Zoetendal, E.G., El Aidy, Sahar, Gerard, Philippe, Abbeele, P., van den, Muriel Derrien, Smidt, Hauke, Van de Wiele, Tom, Gérard, P., Van den Abbeele, Pieter, Bruneau, Aurelia, El Aidy, S.F., Aurélia Bruneau   +44 more
core   +1 more source

A phylogenomic approach to microbial evolution [PDF]

Nucleic Acids Research, 2001
To study the origin and evolution of biochemical pathways in microorganisms, we have developed methods and software for automatic, large-scale reconstructions of phylogenetic relationships. We define the complete set of phylogenetic trees derived from the proteome of an organism as the phylome and introduce the term phylogenetic connection as a concept
T, Sicheritz-Pontén, S G, Andersson
openaire   +2 more sources

Microbial Community and Metabolic Activity in Thiocyanate Degrading Low Temperature Microbial Fuel Cells

Frontiers in Microbiology, 2018
Thiocyanate is a toxic compound produced by the mining and metallurgy industries that needs to be remediated prior to its release into the environment.
Gaofeng Ni, Sebastian Canizales, Elias Broman, Domenico Simone, Viraja R. Palwai, Daniel Lundin, Margarita Lopez-Fernandez, Tom Sleutels, Mark Dopson   +8 more
doaj   +1 more source