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Impact of spatial organization on a novel auxotrophic interaction among soil microbes
Jiang X, Zerfaß C, Feng S, Eichmann R, Asally M, Schäfer P, Soyer OS.
Accepted for publication ISME Journal (February 2018)
Ecological selection of siderophore-producing microbial taxa in response to heavy metal contamination
Hesse E, O'Brien S, Tromas N, Bayer F, Luján AM, van Veen EM, Hodgson DJ and Buckling A.
Ecol Lett 21:117–127 (2018)
Engineering microbial communities using thermodynamic principles and electrical interfaces.
Zerfaß C, Chen J and Soyer OS.
Current Opinion in Biotechnology 50:121–127 (2018)
A Single Community Dominates Structure and Function of a Mixture of Multiple Methanogenic Communities
Sierocinski P, Milferstedt K, Bayer F, Großkopf T, Alston M, Bastkowski S, Swarbreck D, Hobbs PJ, Soyer OS, Hamelin J and Buckling A.
Current Biology 27(21):3390-3395 (2017)
Dynamics of two methanogenic microbiomes incubated in polycyclic aromatic hydrocarbons, naphthenic acids, and oil field produced water
Oko B, Tao Y and Stuckey DC
Biotechnology for Biofuels 10:123 (2017)
MI-Sim: A MATLAB package for the numerical analysis of microbial ecological interactions
Wade MJ, Oakley J, Harbisher S, Parker NG, Dolfing J
PLoS ONE 12(3): e0173249 (2017)
Predicting the dynamics and heterogeneity of genomic DNA content within bacterial populations across variable growth regimes
du Lac M, Scarpelli AH, Bates DG, and Leonard JN
ACS Synthetic biology 6(7):1131-1139 (2017)
Generalised approach to modelling a three-tiered microbial food-web
Sari T. and Wade M.
Mathematical Biosciences 291:21-37 (2017)
Local adaptation of a bacterium is as important as its presence in structuring a natural microbial community
Gómez P, Paterson S, De Meester L, Liu X, Lenzi L, Sharma MD, McElroy K and Buckling A.
Nature Communications 7:12453 (2016)
Metabolic modelling in a dynamic evolutionary framework predicts adaptive diversification of bacteria in a long-term evolution experiment.
Großkopf T, Consuegra J, Gaffé J, Willison JC, Lenski RE, Soyer OS, and Schneider D.
BMC Evolutionary Biology 16:163 (2016)
A stable genetic polymorphism underpinning microbial syntrophy
Großkopf T, Simone Z, Alston M, Folkes L, Swarbreck D, Soyer OS
ISME Journal 10:2844-2853 (2016)
Microbial diversity arising from thermodynamic constraints
Großkopf T. and Soyer OS.
ISME Journal 10:2725-2733 (2016)
Challenges in microbial ecology: building predictive understanding of community function and dynamics.
Widder S, Curtis TP, Großkopf T, et. al and Soyer OS
ISME Journal 10:2557-2568 (2016)
Perspectives in mathematical modelling for microbial ecology
M.J. Wade, J. Harmand, B. Benyahia, T. Bouchez, S. Chaillou, B. Cloez, J.-J. Godon, B. Moussa Boudjemaa, A. Rapaport, T. Sari, R. Arditi, C. Lobry
Ecological Modelling 321, 64-74 (2016).
Emergent behaviour in a chlorophenol-mineralising three-tiered microbial `food web'
M. J. Wade, R. W. Pattinson, N. G. Parker and J. Dolfing
Journal of Theoretical Biology 389:171-186 (2016).
Draft Genome Sequences of Achromobacter piechaudii GCS2, Agrobacterium sp. Strain SUL3, Microbacterium sp. Strain GCS4, Shinella sp. Strain GWS1, and Shinella sp. Strain SUS2 Isolated from Consortium with the Hydrocarbon-Producing Alga Botryococcus braunii
K.J. Jones, K. Moore, C. Sambles, J. Love, D.J. Studholme, S.J. Aves
Genome Announcements 4(1):e01527-15 (2016).
Microbial population dynamics during long-term sludge adaptation of thermophilic and mesophilic sequencing batch digesters treating sewage fine sieved fraction at varying organic loading rates
D.S.M. Ghasimi1, Y. Tao, M. de Kreuk1, M. H. Zandvoort and J. B. van Lier
Biotechnol Biofuels 8:171 (2015).
The Gibbs free energy of formation of halogenated benzenes, benzoates and phenols and their potential role as electron acceptors in anaerobic environments
Jan Dolfing and Igor Novak
Biodegradation 26(1):15-27 (2015).
Some (bacilli) like it hot: genomics of Geobacillus species
David Studholme
Microbial Biotechnology 8(1):40-48 (2015).
Syntrophy in Microbial Fuel Cells
Jan Dolfing
The ISME Journal 8(1):4-5 (2014).
Synthetic Microbial Communities
Tobias Grosskopf and Orkun Soyer
Current Opinion in Microbiology 18:72-77 (2014).
The interplay between microevolution and community structure in microbial populations
Siobhán O'Brien, David J Hodgson and Angus Buckling
Current Opinion in Biotechnology 24:821-825 (2013).
Syntrophic Propionate Oxidation via Butyrate: a Novel Window of Opportunity under Methanogenic Conditions
Dolfing, J.
Applied and Environmental Microbiology 79(14):4515-4516 (2013).