Dr Matthew   Baker
Senior Lecturer

Dr Matthew Baker

DPhil, Oxford University.

BSc (Hons), Australian National University.

Science
Biotech & Biomolecular Science

Dr Matt Baker is a Scientia Research Fellow in the School of Biotechnology and Biomolecular Sciences at the University of New South Wales.

Matt completed his DPhil in Physics at Oxford University as a John Monash Scholar studying the bacterial flagellar motor that makes nearly all bacteria swim. Subsequently Matt investigated protein transport in Oxford's Department of Biochemistry, in particular the bacterial twin arginine transporter (TAT) using cell imaging and artificial bilayer systems. Upon his return to Australia in 2013, Matt focussed primarily on how simple subunit interactions govern assembly of complex architectures, including the rotor (NSMB 2016) and filament (eLife 2017). The next question is how this complexity emerged. To begin addressing this, Matt's nascent group at UNSW looks at how ion selectivity changes using directed evolution (Mol Micro 2019) to examine the evolutionary landscape that constrains the adaptation of the motor.

Matt also investigates force sensitive proteins that change confirmation to activate ion channels (Channels 2019). These are essential at all scales of life, in bacteria to respond to osmotic shock and in mammals in the sense of touch and hearing and are involved in cancer progression and arthritis. This is in collaboration with Prof Boris Martinac of the Victor Chang Cardiac Research Institute and Dr Kate Poole within the School of Medicine at UNSW, and A/Prof Bailong Xiao at Tsinghua University. Matt has been an active delegate and panel chair at the Australia-China Youth Dialogue since 2015, and has active collaborations at Tsinghua, Beida, and SUSTech in Beijing and Shenzhen. In collaboration with Dr Shelley Wickham, we probe membrane dynamics and interactions using novel DNA nanotechnology (Nanoscale 2019), with the ultimate goal to control membrane communication using de novo DNA nanotechnology.

Matt also has a love of radio: he was a Top 5 Under 40 Scientist in Residence at the ABC in 2015 and has continued since then as the regular science presenter on Nightlife, broadcast on ABC Local across Australia, and by producing content for the Health Report, Science Show, Saturday Extra and Earshot on ABC's Radio National. He also has applied his data skills to journalism; he was Australia's inaugural Google Newslab Fellow in 2016 when he was embedded at the Sydney Morning Herald.

 

Publications

  • Book Chapters | 2019
    Dr Matthew Baker
    Cranfield CG; Kloda A; Nikolaev YA; Martinac AD; Ridone P; Bavi N; Bavi O; Petrov E; Battle AR; Nomura T; Rohde PR; Nakayama Y; Rosholm KR; Cox CD; Baker MA; Martinac B, 2019, 'Mechanosensitivity of Ion Channels', in Encyclopedia of Biophysics, Springer Berlin Heidelberg, pp. 1 - 11, http://dx.doi.org/10.1007/978-3-642-35943-9_376-2
    Book Chapters | 2018
    Dr Matthew Baker
    Cranfield CG; Kloda A; Nikolaev YA; Martinac AD; Ridone P; Bavi N; Bavi O; Petrov E; Battle AR; Nomura T; Rohde PR; Nakayama Y; Rosholm KR; Cox CD; Baker MA; Martinac B, 2018, 'Mechanosensitivity of Ion Channels', in Encyclopedia of Biophysics, Springer Berlin Heidelberg, pp. 1 - 11, http://dx.doi.org/10.1007/978-3-642-35943-9_376-1
    Book Chapters | 2017
    Dr Matthew Baker
    Booth TJ; Baker MAB, 2017, 'Nanotechnology: Building and Observing at the Nanometer Scale', in Pharmacognosy: Fundamentals, Applications and Strategy, pp. 633 - 643, http://dx.doi.org/10.1016/B978-0-12-802104-0.00032-9
    Book Chapters | 2016
    Dr Matthew Baker
    Baker MAB, 2016, 'How biophysics may help us understand the flagellar motor of bacteria which cause infections', in Biophysics of Infection, pp. 231 - 243, http://dx.doi.org/10.1007/978-3-319-32189-9_14
  • Journal articles | 2021
    Dr Matthew Baker
    Islam MI; Lin A; Lai YW; Matzke NJ; Baker MAB, 2021, 'Corrigendum: Ancestral Sequence Reconstructions of MotB Are Proton-Motile and Require MotA for Motility (Front. Microbiol, (2020), 11, (625837), 10.3389/fmicb.2020.625837)', Frontiers in Microbiology, vol. 12, http://dx.doi.org/10.3389/fmicb.2021.650373
    Journal articles | 2021
    Dr Matthew Baker
    Gurung JP; Navvab Kashani M; Agarwal S; Peralta G; Gel M; Baker MAB, 2021, 'Separation and enrichment of sodium-motile bacteria using cost-effective microfluidics', Biomicrofluidics, vol. 15, pp. 034108, http://dx.doi.org/10.1063/5.0046941
    Journal articles | 2021
    Dr Matthew Baker
    Matzke NJ; Lin A; Stone M; Baker MAB, 2021, 'Flagellar export apparatus and ATP synthetase: Homology evidenced by synteny predating the Last Universal Common Ancestor', BioEssays, vol. 43, pp. e2100004, http://dx.doi.org/10.1002/bies.202100004
    Journal articles | 2021
    Dr Matthew Baker
    Nieves DJ; Baker MAB, 2021, 'Pushing the super-resolution limit: Recent improvements in microscopy below the diffraction limit', Biochemical Society Transactions, vol. 49, pp. 431 - 439, http://dx.doi.org/10.1042/BST20200746
    Journal articles | 2020
    Dr Matthew Baker
    Daljit Singh JK; Darley E; Ridone P; Gaston J; Abbas A; Wickham SFJ; Baker MAB, 2020, 'Binding of DNA origami to lipids: maximising yield and switching via strand-displacement', , http://dx.doi.org/10.1101/2020.06.01.128686
    Journal articles | 2020
    Dr Matthew Baker
    Lai YW; Ridone P; Peralta G; Tanaka MM; Baker MAB, 2020, 'Evolution of the stator elements of rotary prokaryote motors', Journal of Bacteriology, vol. 202, http://dx.doi.org/10.1128/JB.00557-19
    Journal articles | 2020
    Dr Matthew Baker
    Islam MI; Lin A; Lai YW; Matzke NJ; Baker MAB, 2020, 'Ancestral Sequence Reconstructions of MotB Are Proton-Motile and Require MotA for Motility', Frontiers in Microbiology, vol. 11, http://dx.doi.org/10.3389/fmicb.2020.625837
    Journal articles | 2020
    Dr Matthew Baker
    Gurung JP; Gel M; Baker MAB, 2020, 'Microfluidic techniques for separation of bacterial cells via taxis', MICROBIAL CELL, vol. 7, pp. 66 - 79, http://dx.doi.org/10.15698/mic2020.03.710
    Journal articles | 2020
    Dr Matthew Baker
    Gurung J; Kashani MN; Agarwal S; Peralta G; Gel M; Baker MAB, 2020, 'Separation and enrichment of sodium-motile bacteria using cost-effective microfluidics', , http://dx.doi.org/10.1101/2020.11.24.395772
    Journal articles | 2019
    Dr Matthew Baker
    Nieves DJ; Hilzenrat G; Tran J; Yang Z; MacRae HH; Baker MAB; Justin Gooding J; Gaus K, 2019, 'TagPaint: Covalent labelling of genetically encoded protein tags for DNA-PAINT imaging', Royal Society Open Science, vol. 6, pp. 191268, http://dx.doi.org/10.1098/rsos.191268
    Journal articles | 2019
    Dr Matthew Baker
    Baker MAB; Nieves DJ; Hilzenrat G; Berengut JF; Gaus K; Lee LK, 2019, 'Stoichiometric quantification of spatially dense assemblies with qPAINT', Nanoscale, vol. 11, pp. 12460 - 12464, http://dx.doi.org/10.1039/c9nr00472f
    Journal articles | 2019
    Dr Matthew Baker
    Baker MAB; Brown AJ, 2019, 'A detour to sterol synthesis', Nature Microbiology, vol. 4, pp. 214 - 215, http://dx.doi.org/10.1038/s41564-018-0347-8
    Journal articles | 2019
    Dr Matthew Baker
    Darley E; Singh JKD; Surace NA; Wickham SFJ; Baker MAB, 2019, 'The fusion of lipid and DNA nanotechnology', Genes, vol. 10, http://dx.doi.org/10.3390/genes10121001
    Journal articles | 2019
    Dr Matthew Baker
    Baker MAB, 2019, 'ABA/ASB biophysics and medicine session 2018', Biophysical Reviews, vol. 11, pp. 273 - 274, http://dx.doi.org/10.1007/s12551-019-00529-y
    Journal articles | 2019
    Dr Matthew Baker
    Ishida T; Ito R; Clark J; Matzke NJ; Sowa Y; Baker MAB, 2019, 'Sodium-powered stators of the bacterial flagellar motor can generate torque in the presence of phenamil with mutations near the peptidoglycan-binding region', Molecular Microbiology, vol. 111, pp. 1689 - 1699, http://dx.doi.org/10.1111/mmi.14246
    Journal articles | 2019
    Dr Matthew Baker
    Jaggers OB; Ridone P; Martinac B; Baker MAB, 2019, 'Fluorescence microscopy of piezo1 in droplet hydrogel bilayers', Channels, vol. 13, pp. 102 - 109, http://dx.doi.org/10.1080/19336950.2019.1586046
    Journal articles | 2019
    Dr Matthew Baker
    Nieves D; Hilzenrat G; Tran J; Yang Z; MacRae H; Baker M; Gooding J; Gaus K, 2019, 'tagPAINT: covalent labelling of genetically encoded protein tags for DNA-PAINT imaging', , http://dx.doi.org/10.1101/604462
    Journal articles | 2019
    Dr Matthew Baker
    Baker M; Nieves D; Hilzenrat G; Berengut J; Gaus K; Lee L, 2019, 'Stoichiometric quantification of spatially dense assemblies with qPAINT', , http://dx.doi.org/10.1101/525345
    Journal articles | 2018
    Dr Matthew Baker
    Nichols JA; Herbert Chan HW; Baker MAB, 2018, 'Machine learning: applications of artificial intelligence to imaging and diagnosis.', Biophys Rev, vol. 11, pp. 111 - 118, http://dx.doi.org/10.1007/s12551-018-0449-9
    Journal articles | 2018
    Dr Matthew Baker
    Zhao Z; Zhao Y; Zhuang XY; Lo WC; Baker MAB; Lo CJ; Bai F, 2018, 'Frequent pauses in Escherichia coli flagella elongation revealed by single cell real-Time fluorescence imaging', Nature Communications, vol. 9, http://dx.doi.org/10.1038/s41467-018-04288-4
    Journal articles | 2018
    Dr Matthew Baker
    Lin G; Baker MAB; Hong M; Jin D, 2018, 'The Quest for Optical Multiplexing in Bio-discoveries', Chem, vol. 4, pp. 997 - 1021, http://dx.doi.org/10.1016/j.chempr.2018.01.009
    Journal articles | 2018
    Dr Matthew Baker
    Nieves DJ; Gaus K; Baker MAB, 2018, 'DNA-based super-resolution microscopy: DNA-PAINT', Genes, vol. 9, http://dx.doi.org/10.3390/genes9120621
    Journal articles | 2018
    Dr Matthew Baker
    Baker MAB; Tuckwell AJ; Berengut JF; Bath J; Benn F; Duff AP; Whitten AE; Dunn KE; Hynson RM; Turberfield AJ; Lee LK, 2018, 'Dimensions and Global Twist of Single-Layer DNA Origami Measured by Small-Angle X-ray Scattering', ACS Nano, vol. 12, pp. 5791 - 5799, http://dx.doi.org/10.1021/acsnano.8b01669
    Journal articles | 2018
    Dr Matthew Baker
    Ishida T; Ito R; Clark J; Matzke N; Sowa Y; Baker MAB, 2018, 'Sodium-powered stators of the bacterial flagellar motor can generate torque in the presence of phenamil with mutations near the peptidoglycan-binding region', , http://dx.doi.org/10.1101/507533
    Journal articles | 2018
    Dr Matthew Baker
    Jaggers O; Ridone P; Martinac B; Baker M, 2018, 'Fluorescence Microscopy of Piezo1 in Droplet Hydrogel Bilayers', , http://dx.doi.org/10.1101/508176
    Journal articles | 2017
    Dr Matthew Baker
    Chen M; Zhao Z; Yang J; Peng K; Baker MAB; Bai F; Lo CJ, 2017, 'Length-dependent flagellar growth of vibrio alginolyticus revealed by real time fluorescent imaging', eLife, vol. 6, http://dx.doi.org/10.7554/eLife.22140
    Journal articles | 2017
    Dr Matthew Baker
    Rosholm KR; Baker MAB; Ridone P; Nakayama Y; Rohde PR; Cuello LG; Lee LK; Martinac B, 2017, 'Activation of the mechanosensitive ion channel MscL by mechanical stimulation of supported Droplet-Hydrogel bilayers', Scientific Reports, vol. 7, http://dx.doi.org/10.1038/srep45180
    Journal articles | 2017
    Dr Matthew Baker
    Lee LKY; Baker M; Liew CW; Xu S; Berengut J, 2017, 'Artificial synthesis of supramolecular protein structures', Acta Crystallographica Section A Foundations and Advances, vol. 73, pp. C784 - C784, http://dx.doi.org/10.1107/s2053273317087903
    Journal articles | 2016
    Dr Matthew Baker
    Pu Y; Zhao Z; Li Y; Zou J; Ma Q; Zhao Y; Ke Y; Zhu Y; Chen H; Baker MAB; Ge H; Sun Y; Xie XS; Bai F, 2016, 'Enhanced Efflux Activity Facilitates Drug Tolerance in Dormant Bacterial Cells', Molecular Cell, vol. 62, pp. 284 - 294, http://dx.doi.org/10.1016/j.molcel.2016.03.035
    Journal articles | 2016
    Dr Matthew Baker
    Alcock F; Stansfeld PJ; Basit H; Habersetzer J; Baker MA; Palmer T; Wallace MI; Berks BC, 2016, 'Assembling the Tat protein translocase', eLife, vol. 5, http://dx.doi.org/10.7554/eLife.20718
    Journal articles | 2016
    Dr Matthew Baker
    Ma Q; Sowa Y; Baker MAB; Bai F, 2016, 'Bacterial Flagellar Motor Switch in Response to CheY-P Regulation and Motor Structural Alterations', Biophysical Journal, vol. 110, pp. 1411 - 1420, http://dx.doi.org/10.1016/j.bpj.2016.02.023
    Journal articles | 2016
    Dr Matthew Baker
    Baker MAB; Hynson RMG; Ganuelas LA; Mohammadi NS; Liew CW; Rey AA; Duff AP; Whitten AE; Jeffries CM; Delalez NJ; Morimoto YV; Stock D; Armitage JP; Turberfield AJ; Namba K; Berry RM; Lee LK, 2016, 'Domain-swap polymerization drives the self-assembly of the bacterial flagellar motor', Nature Structural and Molecular Biology, vol. 23, pp. 197 - 203, http://dx.doi.org/10.1038/nsmb.3172
    Journal articles | 2016
    Dr Matthew Baker
    Al-Zyoud WA; Hynson RMG; Ganuelas LA; Coster ACF; Duff AP; Baker MAB; Stewart AG; Giannoulatou E; Ho JWK; Gaus K; Liu D; Lee LK; Böcking T, 2016, 'Binding of transcription factor GabR to DNA requires recognition of DNA shape at a location distinct from its cognate binding site', Nucleic Acids Research, vol. 44, pp. 1411 - 1420, http://dx.doi.org/10.1093/nar/gkv1466
    Journal articles | 2016
    Dr Matthew Baker
    Alcock F; Stansfeld PJ; Basit H; Habersetzer J; Baker MAB; Palmer T; Wallace MI; Berks BC, 2016, 'Assembling the tat protein translocase', eLife, vol. 5, http://dx.doi.org/10.7554/eLife.20718.001
    Journal articles | 2015
    Dr Matthew Baker
    Xue R; Ma Q; Baker MAB; Bai F, 2015, 'A Delicate Nanoscale Motor Made by Nature—The Bacterial Flagellar Motor', Advanced Science, vol. 2, http://dx.doi.org/10.1002/advs.201500129
    Journal articles | 2014
    Dr Matthew Baker
    Baker MAB; Rojko N; Cronin B; Anderluh G; Wallace MI, 2014, 'Photobleaching reveals heterogeneous stoichiometry for equinatoxin II oligomers', ChemBioChem, vol. 16, pp. 2139 - 2145, http://dx.doi.org/10.1002/cbic.201300799
    Journal articles | 2014
    Dr Matthew Baker
    Rojko N; Cronin B; Danial JSH; Baker MAB; Anderluh G; Wallace MI, 2014, 'Imaging the lipid-phase-dependent pore formation of equinatoxin II in droplet interface bilayers', Biophysical Journal, vol. 106, pp. 1630 - 1637, http://dx.doi.org/10.1016/j.bpj.2013.11.4507
    Journal articles | 2013
    Dr Matthew Baker
    Alcock F; Baker MAB; Greene NP; Palmer T; Wallace MI; Berks BC, 2013, 'Live cell imaging shows reversible assembly of the TatA component of the twin-arginine protein transport system.', PNAS, vol. 110, pp. E3650 - E3659, http://dx.doi.org/10.1073/pnas.1306738110
    Journal articles | 2013
    Dr Matthew Baker
    Inoue Y; Baker MAB; Fukuoka H; Takahashi H; Berry RM; Ishijima A, 2013, 'Temperature Dependences of Torque Generation and Membrane Voltage in the Bacterial Flagellar Motor', Biophysical Journal, vol. 105, pp. 2801 - 2810, http://dx.doi.org/10.1016/j.bpj.2013.09.061
    Journal articles | 2012
    Dr Matthew Baker
    Panchompoo J; Aldous L; Baker M; Wallace MI; Compton RG, 2012, 'One-step synthesis of fluorescein modified nano-carbon for Pd(ii) detection via fluorescence quenching', Analyst, vol. 137, pp. 2054 - 2062, http://dx.doi.org/10.1039/c2an16261j
    Journal articles | 2011
    Dr Matthew Baker
    Baker MAB; Inoue Y; Takeda K; Ishijima A; Berry RM, 2011, 'Two methods of temperature control for single-molecule measurements.', European biophysics journal : EBJ, vol. 40, pp. 651 - 660, http://dx.doi.org/10.1007/s00249-010-0667-y
    Journal articles | 2010
    Dr Matthew Baker
    Baker MA; Inoue Y; Lo C-J; Ishijima A; Berry R, 2010, 'Response of the Bacterial Flagellar Motor to Controlled Temperature Change', Biophysical Journal, vol. 98, pp. 159a - 159a, http://dx.doi.org/10.1016/j.bpj.2009.12.856
    Journal articles | 2009
    Dr Matthew Baker
    Baker MAB; Berry RM, 2009, 'An Introduction to the physics of the bacterial flagellar motor: a nanoscale rotary electric motor', Contemporary Physics, vol. 50, pp. 617 - 632, http://dx.doi.org/10.1080/00107510903090553
    Journal articles | 2009
    Dr Matthew Baker
    Baker MA, 2009, 'Probing the Bacterial Flagellar Motor using Temperature Control', Biophysical Journal, vol. 96, pp. 519a - 519a, http://dx.doi.org/10.1016/j.bpj.2008.12.2672
    Journal articles | 2007
    Dr Matthew Baker
    Carberry DM; Baker MAB; Wang GM; Sevick EM; Evans DJ, 2007, 'An optical trap experiment to demonstrate fluctuation theorems in viscoelastic media', Journal of Optics A: Pure and Applied Optics, vol. 9, pp. 204 - 204
    Journal articles |
    Dr Matthew Baker
    Islam MI; Bae JH; Ishida T; Ridone P; Lin J; Kelso MJ; Sowa Y; Buckley BJ; Baker MAB, 'Novel amiloride derivatives that inhibit bacterial motility across multiple strains and stator types', , http://dx.doi.org/10.1101/2021.04.13.439105
    Journal articles |
    Dr Matthew Baker
    Ridone P; Ishida T; Sowa Y; Baker MAB, 'Spontaneous adaptation of ion selectivity in a bacterial flagellar motor', , http://dx.doi.org/10.1101/2021.01.26.427765
    Journal articles |
    Dr Matthew Baker
    Matzke NJ; Lin A; Stone M; Baker MAB, 'Homology between the flagellar export apparatus and ATP synthetase: evidence from synteny predating the Last Universal Common Ancestor', , http://dx.doi.org/10.1101/2021.01.01.425057
  • Conference Papers | 2017
    Dr Matthew Baker
    Baker MA; Tuckwell AJ; Berengut JF; Bath J; Benn F; Duff AP; Whitten AE; Dunn KE; Hynson RM; Turberfield AJ; Lee LK, 2017, 'DNA origami dimensions and structure measured by solution X-ray scattering', in EUROPEAN BIOPHYSICS JOURNAL WITH BIOPHYSICS LETTERS, SPRINGER, British Biophys Soc, Edinburgh, SCOTLAND, pp. S137 - S137, presented at 19th IUPAB Congress / 11th EBSA Congress, British Biophys Soc, Edinburgh, SCOTLAND, 16 July 2017 - 20 July 2017, http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000416406200296&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1
    Conference Papers | 2017
    Dr Matthew Baker
    Hertel S; Liew CW; Baker MA; Lee LK, 2017, 'Artificial assembly of the bacterial flagella motor protein FliG on DNA nanostructures', in EUROPEAN BIOPHYSICS JOURNAL WITH BIOPHYSICS LETTERS, SPRINGER, British Biophys Soc, Edinburgh, SCOTLAND, pp. S345 - S345, presented at 19th IUPAB Congress / 11th EBSA Congress, British Biophys Soc, Edinburgh, SCOTLAND, 16 July 2017 - 20 July 2017, http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000416406202012&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1
    Recorded / Rendered Creative Works | 2017
    Dr Matthew Baker
    Baker M, 2017, The Full Cost of Fraud, Radio National, ABC, Radio, Published: 04 September 2017, Duration: 00:26:30, Recorded / Rendered Creative Works, http://www.abc.net.au/radionational/programs/earshot/the-full-cost-of-fraud/8805412
    Recorded / Rendered Creative Works | 2016
    Dr Matthew Baker
    Baker MAB; Etherington B, 2016, Roast or Fry: Dancehall in the Yards of Kingston, Radio National, Earshot, Radio, Published: 07 June 2016, Duration: 00:26:30, Recorded / Rendered Creative Works, http://www.abc.net.au/radionational/programs/earshot/roast-or-fry:-dancehall-in-the-yards-of-kingston/7444230

Awards

2018  UNSW Faculty of Science – Dean’s Award for Excellence in Science Communication

2018  Scientia Research Fellowship – UNSW Fellowship

2017  Young 'Tall Poppy' Award, NSW – Australian Instute of Policy and Science

2016  Google News Lab Fellowship – Sole Australian Fellow.

2015  Australia-China Youth Dialogue Delegate

2015  Top 5 Under 40 Winner – ABC/UNSW fellowship to ‘discover Australia’s new generation of science thinkers’

2015  Robert M. Macnab Memorial Travel Award to speak at BLAST XIII in Tucson, Arizona

2009:           Nicholas Kurti Prize for Best 3rd Year DPhil Student Physics, University of Oxford.

2009:           Nesta Famelab UK Finalist (http://www.famelab.org).

2005-2009   John Monash Scholar (http://www.monashawards.org). PhD Fellowship

2001-2004   ANU National Undergraduate Scholarship.

Grants

The role of force-sensing ion channels in melanoma migration, NHMRC Project Grant 2017. CIA Poole, CIB Martinac, CIC Biro, CID Baker.

Media