2018

Spatial separation of FtsZ and FtsN during cell division

Söderström. B., Chan, H., Shilling, P.J., Skoglund, U. and Daley, D.O. 

Mol. Microbiol. (2018) 107 (3), 387-401.  [Link]

 

This article was featured on the cover of the journal (see below) and was in the top 5% of all articles tracked by Altmetric (https://www.altmetric.com).

 
2018 cover.jpg
 
 

A synbio approach for selection of highly expressed gene variants in Gram-positive bacteria

Ferro, R., Renning, M., Hernandez Rollan, C., Daley, D.O. and Nørholm, M.H.H.

Microbial Cell Factories (2018) In press.  

 

TARSyn: Tuneable antibiotic resistance devices enabling bacterial synthetic evolution and protein production

Renning, M., Martinez, V., Dunas, F., Rojsater, B., Daley, D.O. and Nørholm, M.H.H.

ACS Synth. Biol. (2018) 7(2), 432-442.  [Link]

 

Selection of highly expressed gene variants in Escherichia coli using translationally coupled antibiotic selection markers

Renning, M., Daley, D.O. and Nørholm, M.H.H.

Methods Mol. Biol. (2018) 1671, 259-268.  [Link]

 

2017

Increasing the permeability of Escherichia coli using MAC13243

Muheim, C., Götzke, H., Eriksson, A.U., Lindberg, S. Lauritsen, I., Nørholm, M.H.H. and Daley, D.O. 

Sci Rep. (2017) 7 (1): 17629. [Link]

 

The bacterial divisome: more than a ring?

Söderström, B. and Daley, D.O.

Curr. Genet. (2017) 63 (2), 161-164. [Link]

 

2016

FtsZ does not initiate membrane constriction at the onset of cell division

Daley, D.O., Skoglund, U. and Söderström, B.

Sci Reports. (2016) 6:33138. [Link]

 

Coordinated disassembly of the divisome in Escherichia coli

Söderström, B., Mirzadeh, K., Toddo, S., von Heijne, G., Skoglund, U. and Daley, D.O.

Mol. Microbiol. (2016) 101 (3), 425-438. [Link]

 

This article was featured on the cover of the journal (see below) and recommended twice by the Faculty of 1000. It was the fourth most downloaded paper in Mol. Micro. In 2016 and was in the top 5% of all articles tracked by Altmetric (https://www.altmetric.com).

 
2016 cover.jpg
 

 

Codon optimising for increased membrane protein production; A minimalist approach.

Mirzadeh, K., Nørholm, M.H. and Daley, D.O.

Methods Mol. Biol. (2016) 1432:53-61. [Link]

 

Identification of a fragment-based scaffold that inhibits the glycosyltransferase WaaG from Escherichia coli

Muheim, C., Bakali, A., Engström, O., Wieslander, Å., Daley, D.O. and Widmalm, G.

Antibiotics (2016) 28;5(1). [Link]

 

2015

Enhanced protein production in Escherichia coli by optimization of cloning scars at the vector:coding sequence junction.

Mirzadeh, K., Martinez, V., Toddo, S., Guntur, S., Herrgard, M., Elofsson, A., Nørholm, M.H. and Daley, D.O.

ACS Synth. Biol. (2015) 4(9), 959-965. [Link]

 

The work carried out in this study received commercial interest, so we applied for a patent (see below) and started a company called CloneOpt AB, which will commercialise the technology we developed.

 

Trimeric microsomal glutathione transferase 2 displays one third of the sites reactivity

Ahmad, S., Thulasingam, M., Palombo, I., Daley, D.O., Johnson, K.A., Morgernstern, R., Haeggström, J.Z. and Rinaldo-Matthis, A.

Biochim Biophys Acta(2015) 1854(10 Pt A), 1365-1371. [Link]

 

The Escherichia coli envelope stress sensor CpxA responds to changes in lipid bilayer properties.

Keller, R., Ariöz, C., Hansmeier, N., Stenberg-Bruzell, F., Burstedt, M., Vikström, D., Kelly, A., Wieslander, Å., Daley, D. O. and Hunke, S.

Biochemistry (2015) 54, 3670-3676. [Link]

 

Identification of putative substrates for the periplasmic chaperone YfgM in Escherichia coli using quantitative proteomics.

Götzke, H., Muheim, C., Altelaar, A.F.M., Heck, A.J.R., Maddalo, G. and Daley, D.O.

Mol. Cell. Proteomics (2015) 14(1), 216-226. [Link]

 

2014

Versatile in vitro system to study translocation and functional integration of bacterial outer membrane proteins.

Norell, D., Heuck, A., Tran-Thi, T.A., Götzke, H., Jacob-Dubuisson, F., Clausen, T.,

Daley, D.O., Braun, V. Muller, M. and Fan, E.

Nature Commun. (2014) Nov 5;5:5396. [Link]

 

YfgM is an ancillary subunit of the SecYEG translocon in Escherichia coli.

Götzke, H., Palombo, I., Muheim, C., Perrody, E., Genevaux., P., Kudva, R., Müller, M. and Daley, D.O.

J. Biol. Chem. (2014) 289(27) 19089-19097.  [Link]

 

Heterologous overexpression of a monotopic glucosyltransferase (MGS) induces fatty acid remodeling in Escherichia coli membranes.

Ariöz. C., Götzke, H., Lindholm, L., Eriksson, J., Edwards, K., Daley, D.O., Barth., A., Wieslander, Å.

Biochim Biophys Acta.(2014), 1838(7), 1867-1870. [Link]

 

Disassembly of the divisome in Escherichia coli: Evidence that FtsZ dissociates before compartmentalisation.

Söderström, B., Skoog, K., Blom., H. Weiss., D.S., von Heijne, G. and Daley, D.O.

Mol. Microbiol. (2014), 92 (1), 1-9. [Link]

 

This article was featured on the cover of the journal (see below) and recommended by the Faculty of 1000.

 
 

 

2013

Improved production of membrane proteins in Escherichia coli by selective codon substitutions.

Norholm, M.H., Toddo, S., Virkki, M.T., Light, S., von Heijne, G., and Daley. D.O.

FEBS Lett. (2013) 587 (15), 2352-2358. [Link]

 

Why is the GMN motif conserved in the CorA/Mrs2/Alr1 superfamily of magnesium transport proteins?

Palombo, I., Daley, D.O. and Rapp. M.

Biochemistry (2013) 52, 4842-4847. [Link]

 

The outer mitochondrial membrane in higher plants.

Duncan, O., van der Merwe, M.J., Daley, D.O., and Whelan, J.

Trends in Plant Sci (2013) 18(4), 207-217. [Link]

 

2012

Sequential closure of the cytoplasm and then the periplasm during cell division in Escherichia coli.

Skoog, K., Soderstrom, B., Widengren, J., von Heijne, G., and Daley, D.O.

J Bacteriol (2012) 194, 584-586. [Link]

 

This article was featured in Microbe, a popular science magazine published by the American Society for Microbiology and 'tweeted' by Nature Reviews Microbiology.

 

The Escherichia coli Cell Division Protein ZipA Forms Homodimers Prior to Association with FtsZ.

Skoog, K., and Daley, D.O.

Biochemistry  (2012) 51, 1407-1415. [Link]

 

Heme incorporation into the cytochrome bo3 occurs at a late stage of assembly.

Palombo, I. and Daley, D.O.

FEBS Lett. (2012) 586 (23), 4197-4202. [Link]

 

Application of split-GFP for topology mapping membrane proteins in Escherichia coli.

Toddo, S., Soderstrom, B., Palombo, I., von Heijne, G., Norholm, M.H.H and Daley. D.O.

Protein Sci. (2012) 21 (10), 1571-1576. [Link]

 

The Periplasmic Loop Provides Stability to the Open State of the CorA Magnesium Channel.

Palombo, I., Daley, D.O. and Rapp. M.

J Biol Chem (2012)  287, 27547-27555. [Link]

 

Antiparallel Dimers of the Small Multidrug Resistance Protein EmrE Are More Stable Than Parallel Dimers.

Lloris-Garcera, P., Bianchi, F., Slusky, J. S., Seppala, S., Daley, D.O. and von Heijne. G.

J Biol Chem (2012) 287, 26052-26059. [Link]

 

Manipulating the genetic code for membrane protein production: What have we learnt so far?

Norholm, M. H., Light, S., Virkki, M. T., Elofsson, A., von Heijne, G., and Daley, D.O.

Biochim Biophys Acta (2012) 1818, 1091-1096. [Link]

 

2011

Penicillin-binding protein 5 can form a homo-oligomeric complex in the inner membrane of Escherichia coli.

Skoog, K., Bruzell, F. S., Ducroux, A., Hellberg, M., Johansson, H., Lehtio, J., Hogbom, M., Daley, D.O.

Protein Sci (2011) 20, 1520-1529. [Link]

 

Systematic analysis of native membrane protein complexes in Escherichia coli.

Maddalo, G., Stenberg-Bruzell, F., Gotzke, H., Toddo, S., Bjorkholm, P., Eriksson, H., Chovanec, P., Genevaux, P., Lehtio, J., Ilag, L. L., and Daley, D.O.

J Proteome Res (2011) 10, 1848-1859. [Link]

 

A reference map of the membrane proteome of Enterococcus faecalis.

Maddalo, G., Chovanec, P., Stenberg-Bruzell, F., Nielsen, H. V., Jensen-Seaman, M. I., Ilag, L. L., Kline, K. A., and Daley, D.O.

Proteomics (2011) 11, 3935-3941. [Link]

 

2010

Estimating Z-ring radius and contraction in dividing Escherichia coli.

Stromqvist, J., Skoog, K., Daley, D.O., Widengren, J., and von Heijne, G.

Mol Microbiol (2010) 76, 151-158. [Link]

 

Cell-free expression profiling of E. coli inner membrane proteins.

Schwarz, D., Daley, D., Beckhaus, T., Dotsch, V., and Bernhard, F.

Proteomics (2010) 10, 1762-1779. [Link]

 

2009

Exploring the inner membrane proteome of Escherichia coli: which proteins are eluding detection and why?

Bernsel, A., and Daley, D.O.

Trends Microbiol (2009) 17, 444-449. [Link]

 

2008

The assembly of membrane proteins into complexes.

Daley, D.O.

Curr Opin Struct Biol (2008) 18, 420-424. [Link]

 

Exploring membrane proteomes.

Stenberg, F. and Daley, D.O.

Proteomics sample preparation, eds J. von Hagen, WILEY-VCH.E, (2008) 303-315. [Link]

 

2007

Assembly of the cytochrome bo3 complex.

Stenberg, F., von Heijne, G., and Daley, D.O.

J Mol Biol (2007) 371, 765-773. [Link]

 

Membrane protein structural biology--how far can the bugs take us?

Granseth, E., Seppala, S., Rapp, M., Daley, D. O., and von Heijne, G.

Mol Membr Biol (2007) 24, 329-332. [Link]

 

2006

 

2005

Protein complexes of the Escherichia coli cell envelope.

Stenberg, F., Chovanec, P., Maslen, S. L., Robinson, C. V., Ilag, L. L., von Heijne, G., and Daley, D.O.

J Biol Chem (2005) 280, 34409-34419. [Link]

 

This article was profiled in Science (Editors choice, 309: 1303) and content was included in a text book, called Membrane Structural Biology (edited by Mary Luckey). Information from the article was also used to annotate entries in the Swiss Prot and Entrez databases.

 

 

Experimentally constrained topology models for 51,208 bacterial inner membrane proteins.

Granseth, E., Daley, D. O., Rapp, M., Melen, K., and von Heijne, G.

J Mol Biol (2005) 352, 489-494. [Link]

 

Global topology analysis of the Escherichia coli inner membrane proteome.

Daley, D. O., Rapp, M., Granseth, E., Melen, K., Drew, D., and von Heijne, G.

Science (2005) 308, 1321-1323. [Link]

 

This article was profiled in Nature Methods (Editorial comment, 2: 483) and the Journal of Proteome Research (4: 1045). Content from the article has been included in the text book, Membrane Structural Biology (edited by Mary Luckey) and has been used to annotate hundreds of entries in the Swiss Prot and Entrez databases.

 

A scalable, GFP-based pipeline for membrane protein overexpression screening and purification.

Drew, D., Slotboom, D. J., Friso, G., Reda, T., Genevaux, P., Rapp, M., Meindl-Beinker, N. M., Lambert, W., Lerch, M., Daley, D. O., Van Wijk, K. J., Hirst, J., Kunji, E., and de Gier, J. W.

Protein Sci (2005) 14, 2011-2017. [Link]

 

Adaptations required for mitochondrial import following mitochondrial to nucleus gene transfer of ribosomal protein S10.

Murcha, M. W., Rudhe, C., Elhafez, D., Adams, K. L., Daley, D. O. and Whelan, J.

Plant Physiol (2005) 138, 2134-2144. [Link]

 

Why genes persist in organelle genomes.

Daley, D. O., and Whelan, J.

Genome Biol (2005) 6, 110. [Link]

 

2004

Experimentally based topology models for E. coli inner membrane proteins.

Rapp, M., Drew, D., Daley, D.O., Nilsson, J., Carvalho, T., Melen, K., de Gier J-W., von Heijne, G.

Prot. Sci. (2004) 13, 937-945. [Link]

 

Plant mitochondrial genome evolution and gene transfer to the nucleus.

Adams, K.L. and Daley, D.O.

Advances in Photosynthesis and Respiration, eds D.A. Day, A.H. Millar and J. Whelan, Kluwer Academic publishers, (2004) 107-120.

 

2003

Import pathway of nuclear-encoded cytochrome c oxidase subunit 2 using yeast as a model.

Qualmann, S.R., Daley, D.O., Whelan, J. and Pratje, E.

Plant Biol (2003) 5, 481-490.

 

Respiratory gene expression in soybean cotyledons during post-germinative development.

Daley, D.O., Considine, M.J., Howell, K.A., Millar, A. H., Day, D.A. and Whelan, J. Plant Mol Biol (2003) 51, 745 – 755.

 

2002

Intracellular gene transfer: Reduced hydrophobicity facilitates gene transfer for subunit 2 of cytochrome c oxidase.

Daley, D.O., Clifton, R. and Whelan, J. 

PNAS (2002) 99, 10510-10515. [Link]

 

Genes for two mitochondrial ribosomal proteins in flowering plants are derived from their chloroplast or cytosolic counterparts.

Adams, K.L., Daley, D.O., Whelan, J. and Palmer, J.D.

Plant Cell (2002) 14, 931-943. [Link]

 

Gene transfer from the mitochondrion to the nucleus: Novel mechanisms of activation from Cox2.

Daley, D.O., Adams, K.L., Clifton, R., Qualmann, S., Millar, A. H., Palmer, J. D., Pratje, E. and Whelan, J.

Plant J (2002) 30(1), 11-21. [Link]

 

2001

The expression of alternative oxidase and uncoupling protein during fruit ripening in mango (Mangifera indica L.).

Considine, M.J., Daley, D.O. and Whelan, J.

Plant Physiol (2001) 126, 1619-1629. [Link]

 

2000

Repeated, recent and diverse transfers of a mitochondrial gene to the nucleus in flowering plants.

Adams, K.L. Daley, D.O., Qui, Y-L., Whelan, J. and Palmer, J.D.

Nature (2000) 408, 354-357. [Link]

                                                                                                                                                                                                                                                

This article was profiled in Nature (News and Views 408: 302-305), Current Opinion in Genetics and Development (Paper alert 11; 7) and Trends in Plant Science (News and Comment 6; 52).

                                                                                                                                                                                                                                                 

Regulatory, developmental and tissue aspects of mitochondrial biogenesis in plants.

McCabe, T.C., Daley D.O. and Whelan, J.

Plant Biology (2000) 2, 121-135. 

 

1999

The multiple alternative oxidase proteins of soybean.

Tanudji, M., Djajanegara, I.N., Daley, D.O., McCabe, T.C., Finnegan, P.M., Day, D.A. and Whelan. J.

Aust J Plant Physiol (1999) 26, 337-344.

 

                                                                                                                                                                                                                                                           

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Patents

 

Selective optimisation of a ribosome binding site for protein production.

Daley D.O., Mirzadeh K., Toddo S. and Guntur, S.

Application number 1451553-0 (Sweden). Filing date 2014-12-16 [Link]