Publications
Here you can find out about our latest published research.
2021
- J.P. Prince, J.R. Bolla, G.L.M. Fisher, J. Mäkelä, C.V. Robinson, L.K. Arciszewska, D.J. Sherratt (2021) Acyl Carrier Protein binding to the Escherichia coli MukB coiled coil activates MukB ATPase and is required for in vivo MukBEF function. Nature Communications 12, 6721
- G.L.M. Fisher, J.R. Bolla, K.V. Rajasekar, J. Mäkelä, R. Baker, M. Zhou, J. Prince, M. Stracy, C.V. Robinson, L.K. Arciszewska, D.J. Sherratt (2021) Competitive binding of MatP and topoisomerase IV to the MukB dimerization hinge. eLife, 10:e70444
- J. Mäkelä*, S. Uphoff, D.J. Sherratt* (2021) Non-random segregation of sister chromosomes by Escherichia coli MukBEF. PNAS, 118(33): e2022078118
*corresponding authors
2020
2019
- K.V. Rajasekar, R. Baker, G.L.M. Fisher, J.R. Bolla, J. Mäkelä, M. Tang, K. Zawadzka, O. Koczy, F. Wagner, C.V. Robinson, L.K. Arciszewska, D.J. Sherratt (2019) Dynamic architecture of the Escherichia coli structural maintenance of chromosomes (SMC) complex, MukBEF. Nucleic Acids Research, 47(18):9696-9707
- A. Hofmann*, J. Mäkelä*, D.J. Sherratt, D. Heermann, S.M. Murray (2019) Self-organised segregation of bacterial chromosomal origins. eLife, 8:e46564
*equal contribution
- N. Banaz*, J. Mäkelä*, S. Uphoff (2019) Choosing the right label for single-molecule tracking in live bacteria: Side-by-side comparison of photoactivatable fluorescent protein and Halo tag dyes. Journal of Physics D: Applied Physics, 52:064002
*equal contribution
Older articles
- J. Mäkelä, V. Kandavalli, A.S. Ribeiro (2017) Rate-limiting steps in transcription dictate sensitivity to variability in cellular components. Scientific Reports, 7:10588
- S.M.D. Oliveira, R. Neeli-Venkata, N. Goncalves, J.A. Santinha, L. Martins, H. Tran, J. Mäkelä, A. Gupta, M. Barandas, A. Häkkinen, J. Lloyd-Price, J.M. Fonseca, A.S. Ribeiro (2016) Increased cytoplasm viscosity hampers aggregate polar segregation in Escherichia coli. Molecular Microbiology, 99(4):686–699
- L. Kong, K.L. Aho, K. Granberg, R. Lund, L. Järvenpää, J. Seppälä, P. Gokhale, K. Leinonen, L. Hahne, J. Mäkelä, K. Laurila, H. Pukkila, E. Närvä, O. Yli-Harja, P.W. Andrews, M. Nykter, R. Lahesmaa, C. Roos, R. Autio (2013) ESTOOLS Data@Hand, a human gene expression data analysis resource for the stem cell research community. Nature Methods, 10:814-815
- J. Mäkelä, M. Kandhavelu, S. Oliveira, J. Chandraseelan, J. Lloyd-Price, J. Peltonen, O. Yli-Harja, A.S. Ribeiro (2013) In vivo single-molecule kinetics of activation and subsequent activity of the arabinose promoter. Nucleic Acids Research, 41(13):6544-6552
- I. Potapov, J. Mäkelä, O. Yli-Harja, A.S. Ribeiro (2012) Effects of Codon Sequence on the Dynamics of Genetic Networks. Journal of Theoretical Biology, 315:17-25
- E. Lihavainen, J. Mäkelä, J.N. Spelbrink, A.S. Ribeiro (2012) Mytoe: Automatic analysis of mitochondrial dynamics. Bioinformatics, 28(7):1050-1051
- L. Martins*, J. Mäkelä*, A. Häkkinen, M. Kandhavelu, O. Yli-Harja, J.M. Fonseca, A.S. Ribeiro (2012) Dynamics of transcription of closely spaced promoters in Escherichia coli, one event at a time. Journal of Theoretical Biology, 301:83-94
*equal contribution
- J. Mäkelä, H. Huttunen, M. Kandhavelu, O. Yli-Harja, A.S. Ribeiro (2011) Automatic detection of changes in the dynamics of delayed stochastic gene networks and in vivo production of RNA molecules in Escherichia coli. Bioinformatics, 27(19):2714-2720
- J. Mäkelä, J. Lloyd-Price, O. Yli-Harja, A.S. Ribeiro (2011) Stochastic sequence-level model of coupled transcription and translation in prokaryotes. BMC Bioinformatics, 12:121