***
T. Ohmura, D.J. Skinner, K. Neuhaus, G.P.T. Choi, J. Dunkel, K. Drescher
submitted (2023). [bioRxiv]
[journal link]
Vibrio cholerae biofilm dispersal
regulator causes cell release from matrix through type IV pilus
retraction
P.K. Singh*, D.K.H. Rode*, P. Buffard, K. Nosho, M. Bayer, H. Jeckel, E.
Jelli, K. Neuhaus, E. Jiménez-Siebert, N. Peschek, T. Glatter, K.
Papenfort, K. Drescher
submitted (2023). (* equal contribution) [bioRxiv]
[journal link]
In vivo microrheology reveals local elastic and plastic responses inside three-dimensional bacterial biofilms
T. Ohmura, D.J. Skinner, K. Neuhaus, G.P.T. Choi, J. Dunkel, K. Drescher
Advanced Materials (2024).
[journal link]
Revitalizing antibiotic discovery and development through in vitro modelling of in-patient conditions
J. Sollier, M. Basler, P. Broz, P.S. Dittrich, K. Drescher, A. Egli, A. Harms, A. Hierlemann, S. Hiller, C.G. King, J.D. McKinney, J. Moran-Gilad, R.A. Neher, M.G.P. Page, S. Panke, A. Persat, P. Picotti, K.M. Rentsch, P. Rivera-Fuentes, U. Sauer, D. Stolz, S. Tschudin-Sutter, C. van Delden, E. van Nimwegen, J.-W. Veening, M. Zampieri, A.S. Zinkernagel, N. Khanna, D. Bumann, U. Jenal, C. Dehio
Nature Microbiology 9, 1-3 (2023).
[journal link]
Biofilm formation on human immune cells is a multicellular predation strategy of Vibrio cholerae
L. Vidakovic, S. Mikhaleva*, H. Jeckel*, V. Nisnevich*, K. Strenger*, K. Neuhaus, K. Raveendran, N. Bossel Ben-Moshe, M. Aznaourova, K. Nosho, A. Drescher, B. Schmeck, L.N. Schulte, A. Persat, R. Avraham, K. Drescher
Cell 186, 2690-2704 (2023).
[journal link]
-- see highlight in Nature [link].
-- see highlight in Nature Rev. Microbiol. [link].
-- see highlight in Nature Rev. Immunol. [link].
Spatiotemporal transcriptomes during multicellular development of bacterial swarms reveal supra-generational cooperation
H. Jeckel*, K. Nosho*, K. Neuhaus, A.D. Hastewell, D.J. Skinner, D. Saha, N. Netter, N. Paczia, J. Dunkel, K. Drescher
Nature Microbiology 8, 2378-2391 (2023). [* equal contribution] [journal link] [dataset explorer]
-- see Behind the Paper story.
Topological packing statistics of living and non-living matter
D.J. Skinner, H. Jeckel, A.C. Martin, K. Drescher, J. Dunkel
Science Advances 9, eadg1261 (2023). [journal link] [arXiv]
A genetic switch controls Pseudomonas aeruginosa surface colonization
C. Manner, R. Dias Teixeira, D. Saha, A. Kaczmarczyk, R. Zemp, F. Wyss, T. Jaeger, B.-J. Laventie, S. Boyer, J.G. Malone, J.B. Andersen, M. Givskov, T. Tolker-Nielsen, S. Hiller, K. Drescher, U. Jenal
Nature Microbiology 8, 1520–1533 (2023).
[journal link]
-- see highlight by Gomez and Waters in Nature Microbiology [link].
Proliferating Active Matter
O. Hallatschek, S.S. Datta, K. Drescher, J. Dunkel, J. Elgeti, B. Waclaw, N.S. Wingreen
Nature Reviews Physics 5, 407-419 (2023).
[journal link]
Single-cell segmentation in bacterial biofilms with an optimized deep learning method enables tracking of cell lineages and measurements of growth rates
E. Jelli*, T. Ohmura*, N. Netter*, M. Abt, E. Jiménez-Siebert, K. Neuhaus, D.K.H. Rode, C.D. Nadell, K. Drescher
Molecular Microbiology 119, 659-676 (2023). [* equal contribution]
[journal link]
-- cover of Molecular Microbiology, editor's choice [link].
Shared biophysical mechanisms determine early biofilm architecture development across different bacterial species
H. Jeckel*, F. Diaz-Pascual*, D.J. Skinner*, B. Song*, E. Jimenez
Siebert, K. Strenger, E. Jelli, S. Vaidya, J. Dunkel, K. Drescher
PLOS Biology, 20(10):e3001846 (2022). [* equal contribution]
[journal link] [data repository]
Interkingdom assemblages in human saliva display group-level surface mobility and disease-promoting emergent functions
Z. Ren*, H. Jeckel*, A. Simon-Soro, Z. Xiang, Y. Liu, I.M. Cavalcanti, J. Xiao, N.-N. Tin, A. Hara, K. Drescher#, H. Koo#
PNAS 119, e2209699119 (2022). [* equal contribution] [journal link]
Mechanisms underlying Vibrio cholerae biofilm formation and dispersion
J.K. Teschler, C.D. Nadell, K. Drescher, F.H. Yildiz
Annual Review of Microbiology, 76:503-32 (2022). [journal link]
VxrB influences antagonism within biofilms by controlling competition through extracellular matrix production and type 6 secretion
J.K. Teschler, E. Jiménez-Siebert, H. Jeckel, P.K. Singh, J.H. Park, S. Pukatzki, C.D. Nadell, K. Drescher, F.H. Yildiz
mBio, 13:e01885-22 (2022). [journal link]
Spatial
alanine metabolism determines local growth dynamics of Escherichia coli colonies
F.
Díaz-Pascual, M. Lempp, K. Nosho, H. Jeckel, J.K. Jo, K. Neuhaus, R.
Hartmann, E. Jelli, M.F. Hansen, A. Price-Whelan, L.E.P. Dietrich, H.
Link, K. Drescher
eLife, 10:e70794 (2021). [journal link] [bioRxiv]
Matrix-trapped
viruses can prevent invasion of bacterial biofilms by colonizing cells
M.C. Bond, L. Vidakovic, P.K. Singh, K. Drescher, C.D. Nadell
eLife, 10:e65355 (2021). [journal link]
Single-objective
high-resolution confocal light sheet fluorescence microscopy for
standard biological sample geometries
S. Yordanov, K. Neuhaus, R. Hartmann, F. Díaz-Pascual, L. Vidakovic,
P.K. Singh, K. Drescher
Biomedical Optics Express 12,
3372-3391 (2021).
[journal link]
-- top download at Biomedical Optics Express in Oct 2021.
Quantitative
image analysis of microbial communities with BiofilmQ
R. Hartmann*, H. Jeckel*, E. Jelli*, P.K. Singh, S. Vaidya, M. Bayer,
D. Rode, L.
Vidakovic, F. Díaz-Pascual, J.C.N. Fong, A. Dragoš, O. Besharova, J.G.
Thöming, N. Netter, S. Häussler, C.D.
Nadell, V. Sourjik, A.T. Kovács, F.H. Yildiz, K. Drescher
Nature Microbiology 6, 151-156
(2021). [* equal contribution] [journal link]
-- download/use the BiofilmQ software
tool, view
video tutorials.
-- see perspective by Divya
Choudhary and Chloé J. Cassaro in Nature Rev. Microbiol.
Dynamic
relocalization of the cytosolic type III secretion system components
prevents premature protein secretion at low external pH
S. Wimmi, A. Balinovic, H. Jeckel, L. Selinger, D. Lampaki, E.
Eisemann,
I. Meuskens, D. Linke, K. Drescher, U. Endesfelder, A. Diepold
Nature Communications 12, 1625
(2021).
[journal
link]
Advances
and opportunities in image analysis of bacterial cells and communities
H. Jeckel, K. Drescher
FEMS Microbiology Reviews
45:4,
1-14 (2021). [journal
link]
Learning
principles of bacterial biofilm dynamics from the behavior of single
cells
K. Drescher, J. Dunkel
Physical Biology, in press
(2021). [journal
link]
Topological
metric detects hidden order in disordered media
D.J. Skinner, B. Song, H. Jeckel, E. Jelli, K. Drescher, J. Dunkel
Physical Review Letters 126,
048101 (2021). [journal
link]
-- see viewpoint by Suraj
Shankar in Physics.
Vibrio cholerae biofilm scaffolding
protein RbmA shows an intrinsic, phosphate‐dependent autoproteolysis
activity
M.
Maestre‐Reyna, W.‐C. Huang, W.‐J. Wu, P.K. Singh, R. Hartmann, P.‐H.
Wang, C.‐C. Lee, T. Hikima, M. Yamamoto, Y. Bessho, K. Drescher, M.‐D.
Tsai, A.H.‐J. Wang
IUBMB Life 73, 418-431 (2021).
[journal
link]
RNA-mediated
control of cell shape modulates antibiotic resistance in Vibrio cholerae
R. Herzog, N. Peschek, P.K. Singh, M. Sprenger, F. Meyer, K.S.
Fröhlich, L. Schröger, M. Bramkamp, K. Drescher, K. Papenfort
Nature Communications 11, 6067
(2020). [journal
link]
Multicellular
and unicellular responses of microbial biofilms to stress
D.K.H. Rode*, P.K. Singh*, K. Drescher
Biological Chemistry 401,
1365–1374
(2020). [* equal contribution] [journal link]
Stability
of dancing Volvox
T. Ishikawa, T.J. Pedley, K. Drescher, R.E. Goldstein
Journal of Fluid Mechanics
903, A11 (2020). [journal
link] [arXiv]
BacStalk:
a comprehensive and interactive image analysis software tool for
bacterial cell biology
R. Hartmann*, M.C.F. van Teeseling*, M. Thanbichler, K. Drescher
Molecular Microbiology 114,
140-150 (2020). [* equal contribution] [journal
link]
-- download/use the BacStalk software
tool, view
video tutorials.
Privatization
of biofilm matrix in structurally heterogeneous biofilms
S.B. Otto, M. Martin, D. Schäfer, R. Hartmann, K. Drescher, S. Brix, A.
Dragoš, A.T. Kovács
mSystems 5, e00425-20 (2020). [journal
link]
A
tyrosine phosphoregulatory system controls exopolysaccharide
biosynthesis and biofilm formation in Vibrio
cholerae
C.
Schwechheimer, K. Hebert, S. Tripathi, P.K. Singh, K.A. Floyd, E.R.
Brown, M.E. Porcella, J. Osorio, J.T.M. Kiblen, F.A. Pagliai,
K.Drescher, S.M. Rubin, F.H. Yildiz
PLOS Pathogens 16, e1008745
(2020).
[journal
link]
Upregulation
of virulence genes promotes Vibrio
cholerae biofilm hyperinfectivity
A.L.
Gallego-Hernandez, W.H. DePas, J.H. Park, J.K. Teschler, R. Hartmann,
H. Jeckel, K. Drescher, S. Beyhan, D.K. Newman, F.H. Yildiz
PNAS 117, 11010–11017 (2020).
[journal
link]
Kin
discrimination in social yeast is mediated by
cell surface receptors of the Flo11 adhesin family
S. Brückner, R. Schubert, T. Kraushaar, R. Hartmann, D. Hoffmann, E.
Jelli, K.
Drescher, D.J. Müller, L.-O. Essen, H.-U. Mösch
eLife 9, e55587 (2020). [journal link]
Biofilm
structure promotes coexistence of phage-resistant and phage-susceptible
bacteria
E.L. Simmons, M.C. Bond, B. Koskella, K. Drescher, V. Bucci, C.D.
Nadell
mSphere 5, e00877-19 (2020). [bioRxiv]
[journal
link]
Breakdown
of Vibrio cholerae biofilm
architecture induced by antibiotics disrupts community barrier function
F. Diaz-Pascual, R. Hartmann, M. Lempp, L. Vidakovic, B. Song, H.
Jeckel, K.M. Thormann, F.H.
Yildiz, J. Dunkel, H. Link, C.D. Nadell, K. Drescher
Nature Microbiology 4,
2136-2145
(2019). [Free Access] [journal
link]
-- see perspective by Divya
Choudhary and Chloé J. Cassaro in Nature Rev. Microbiol.
Flow-induced
symmetry breaking in growing bacterial biofilms
P. Pearce, B. Song, D.J. Skinner, R. Mok, R. Hartmann, P.K. Singh, H.
Jeckel, J.S. Oishi, K. Drescher, J. Dunkel
Physical Review Letters 123,
258101 (2019). [journal
link] [bioRxiv]
Chemotactic
behavior of Escherichia coli
at high cell density
R. Colin, K. Drescher, V. Sourjik
Nature Communications 10, 5329
(2019). [journal
link]
NosP
signaling modulates the NO/H-NOX-mediated multicomponent c-di-GMP
network and biofilm formation in Shewanella
oneidensis
L.-M.
Nisbett, L. Binnenkade, B.A. Bacon, S. Hossain, N. Kotloski, E.
Brutinel, R. Hartmann, K. Drescher, D.P. Arora, S. Muralidharan, K.M.
Thormann, J.M. Gralnick, E.M. Boon
Biochemistry 58, 4827−4841
(2019).
[journal
link]
Common
concepts for bacterial collectives
H. Jeckel, N. Matthey, K. Drescher
eLife 8, e42697 (2019).
[journal link]
Bacterial
multicellularity in biofilms
K. Drescher
BIOspektrum 25, 258-260
(2019).
[journal link]
Learning
the space-time phase diagram of bacterial swarm expansion
H. Jeckel, E. Jelli, R. Hartmann, P.K. Singh, R. Mok, J.F. Totz, L.
Vidakovic, B.
Eckhardt, J. Dunkel, K. Drescher
PNAS 116, 1489-1494 (2019).
[Open Access] [dataset explorer]
-- Youtube video
summary.
Emergence
of three-dimensional order and structure in growing biofilms
R. Hartmann, P.K. Singh*, P. Pearce*, R. Mok*, B. Song, F.
Diaz-Pascual,
J. Dunkel, K. Drescher
Nature Physics 15, 251-256
(2019). [* equal contribution] [journal
link] [Europe
PMC] [data
repository]
-- see Jordi Garcia-Ojalvo's Perspective
in Nature Physics.
-- see Phil Pearce's "Behind the paper" story.
Selective
enrichment of slow-growing bacteria in a metabolism-wide CRISPRi
library with a TIMER protein
D. Beuter, J. Gomes-Filho, L. Randau, F. Díaz-Pascual, K. Drescher, H.
Link
ACS Synthetic Biology 7,
2775-2782 (2018). [journal
link]
Division of labor
during biofilm matrix production
A.
Dragos, H.T. Kiesewalter, M. Martin, C.-Y. Hsu, R. Hartmann, T.
Wechsler, K. Drescher, N. Stanley-Wall, R. Kümmerli, A.T. Kovacs
Current Biology 28, 1-11
(2018). [journal
link]
-- see highlight in Nature
Rev. Microbiol. by A. York [link]
-- see highlight in Current
Biology by B. Momeni [link]
-- see "Behind the Paper" story [link]
Cell adhesion and
fluid flow jointly initiate biofilm genetic structure
R. Martinez-Garcia, C.D. Nadell, R. Hartmann, K. Drescher, J.A.
Bonachela
PLoS Computational Biology 14,
e1006094 (2018). [Open
Access]
Dynamic
biofilm architecture confers individual and collective mechanisms of
viral protection
L. Vidakovic, P.K. Singh, R. Hartmann, C.D. Nadell, K. Drescher
Nature Microbiology 3, 26-31 (2018). [Free Access] [journal link]
[Europe
PMC]
-- see perspective by J. Price
& M.R. Chapman in Nature
Microbiol.
[link]
Phage mobility is a
core determinant of phage-bacteria coexistence in biofilms
M. Simmons, K. Drescher, C.D. Nadell, V. Bucci
ISME Journal 12, 531-543 (2018). [Open Access]
Vibrio cholerae combines individual
and collective sensing to trigger biofilm dispersal
P.K. Singh, S. Bartalomej, R. Hartmann, H. Jeckel, L. Vidakovic, C.D.
Nadell, K.
Drescher
Current Biology 27, 1-8 (2017). [Open
Access]
-- see F1000
recommendation by Chris Waters
Structural dynamics
of RbmA governs plasticity of Vibrio
cholerae biofilms
J.C.
Fong, A. Rogers, A.K. Michael, N.C. Parsley, W.C. Cornell, Y.C. Lin,
P.K. Singh, R. Hartmann, K. Drescher, E. Vinogradov, L.E. Dietrich,
C.L. Partch, F.H. Yildiz
eLife 6, e26163 (2017). [Open Access]
-- see highlight in eLife
by Pierrat & Persat
[link]
-- see highlight in Nature
Rev. Microbiol. by A. York
[link]
Flow environment
and matrix structure interact to determine spatial competition in Pseudomonas aeruginosa biofilms
C.D. Nadell, D. Ricaurte, J. Yan, K. Drescher, B.L. Bassler
eLife 6, e21855 (2017). [Open Access]
-- see highlight in Trends
in Microbiology by Chew & Yang
[link]
-- see article in Quanta
Magazine by Carrie Arnold
[link]
An emerging grip on
the growth of grounded bacteria
C.D. Nadell, R. Hartmann, K. Drescher
ACS Nano 10, 9109-9110 (2016). [journal
link]
Diversification of
Gene Expression during Formation of Static Submerged Biofilms by Escherichia
coli
O. Besharova, V.M. Suchanek, R. Hartmann, K. Drescher, V. Sourjik
Frontiers in Microbiology 7, 1568 (2016). [Open
Access]
Spatial structure,
cooperation, and competition in biofilms
C.D. Nadell, K. Drescher, K.R. Foster
Nature Reviews Microbiology 14, 589-600 (2016). [journal
link]
Architectural
transitions in Vibrio cholerae biofilms at single-cell
resolution
K. Drescher, J. Dunkel, C.D. Nadell, S. van Teeffelen, I. Grnja, N.S.
Wingreen, H.A. Stone, B.L. Bassler
PNAS 113,
E2066–E2072 (2016). [journal link]
-- see excellent perspective by Gerard C.L. Wong in
PNAS [link,
pdf]
-- see highlight in PNAS
[link]
The mechanical
world of bacteria
A. Persat, C.D. Nadell, K.M. Kim, F. Ingremeau, A. Siryaporn, K.
Drescher, N.S. Wingreen, B.L. Bassler, Z. Gitai, H.A. Stone
Cell 161, 988-997 (2015). [journal
link]
Extracellular
matrix structure governs invasion resistance in bacterial biofilms
C.D. Nadell, K. Drescher, N.S. Wingreen, B.L. Bassler
ISME Journal 9, 1700-1709 (2015). [journal
link]
Solutions to the
public goods dilemma in bacterial biofilms
K. Drescher, C.D. Nadell, H.A. Stone, N.S. Wingreen, B.L. Bassler
Current Biology 24, 50-55 (2014). [journal
link]
-- see perspective by M.S. Datta & J. Gore in Curr.
Biol. [link]
-- see highlight in Nature [link]
-- see feature at National Institutes of Health (NIH/NIGMS) [link]
-- see news story at Princeton [link]
Filaments in curved
streamlines: Rapid formation of Staphylococcus aureus biofilm
streamers
M.K. Kim, K. Drescher, O.S. Pak, B.L. Bassler, H.A. Stone
New Journal of Physics 16, 065024 (2014). [journal
link]
-- selected by NJP as one of the
"Highlights of 2014"
-- part of special issue on
"Physics of Biofilms" [link]
-- see NPR news story by K. Manke [link]
A quorum-sensing
inhibitor blocks Pseudomonas aeruginosa virulence
and biofilm formation
C.T. O'Loughlin, L.C. Miller, A. Siryaporn, K. Drescher, M.F.
Semmelhack, B.L. Bassler
PNAS 110,
17981-17986 (2013). [journal
link]
-- see highlight in Nature Rev. Microbiol. by
C. Tobin Kahrstrom [link]
Biofilm streamers
cause catastrophic disruption of flow with consequences for
environmental and medical systems
K. Drescher, Y. Shen, B.L. Bassler, H.A. Stone
PNAS 110,
4345-4350 (2013). [journal link]
-- see highlight in PNAS [link]
-- see highlight by the NIH [link]
and National Institute of General Medical Sciences [link]
-- see highlight by the NSF [link]
Fluid dynamics of
bacterial turbulence
J. Dunkel, S. Heidenreich, K. Drescher, H.H. Wensink, M. Bär, R.E.
Goldstein
Physical Review Letters 110, 228102 (2013). [journal link]
-- see viewpoint by I. Aranson in Physics [link]
Cutting through the
complexity of cell collectives
C.D. Nadell*, V. Bucci*, K. Drescher*, S.A. Levin, B.L. Bassler, J.B.
Xavier
Proceedings of the Royal Society B 280, 20122770 (2013).
[* equal contribution] [journal
link]
Swimming like algae:
biomimetic soft artificial cilia
S. Sareh, J. Rossiter, A. Conn, K. Drescher, R.E. Goldstein
Journal of the Royal Society Interface 10, 20120666
(2013). [journal
link]
Meso-scale turbulence
in living fluids
H.H. Wensink*, J. Dunkel*, S. Heidenreich*, K. Drescher*, R.E.
Goldstein,
H. Löwen, J.M. Yeomans
PNAS 109,
14308-14313 (2012). [* equal contribution] [journal
link]
-- see highlight by E. Frey in Physik
Journal [pdf]
Fluid dynamics and
noise in bacterial cell-cell and cell-surface interactions
K. Drescher, J. Dunkel, L.H. Cisneros, S. Ganguly, R.E. Goldstein
PNAS 108,
10940-10945 (2011). [journal link]
[pdf] [video]
The flagellar
photoresponse in Volvox species
C.A. Solari, K. Drescher, R.E. Goldstein
Journal of Phycology 47, 580-583 (2011). [journal pdf] [link]
Direct measurement of
the flow field around swimming microorganisms
K. Drescher, R.E. Goldstein, N. Michel, M. Polin, I. Tuval
Physical Review Letters 105, 168101 (2010). [pdf] [arxiv][videos: Chlamy, Volvox]
-- see viewpoint by D. Saintillan in Physics [pdf]
-- see commentaries in Physics World [link], Physics
Today [link]
Flagellar phenotypic
plasticity in volvocalean algae correlates with Péclet number
C.A. Solari, K. Drescher, S. Ganguly, J.O. Kessler, R.E. Michod,
R.E. Goldstein
Journal of the Royal Society Interface 8, 1409-1417
(2011). [pdf]
Fidelity of adaptive
phototaxis
K. Drescher, R.E. Goldstein, I. Tuval
PNAS
107, 11171-11176 (2010). [pdf]
[journal
link]
-- see highlight in PNAS [pdf]
-- see summary on HFSP website[link]
Chlamydomonas swims
with two 'gears' in a eukaryotic version of run-and-tumble locomotion
M. Polin, I. Tuval, K. Drescher, J.P. Gollub, R.E. Goldstein
Science 325, 487-490 (2009). [pdf] [supporting
material: pdf]
[video summary]
-- see viewpoint in Science by R.
Stocker and W. Durham [pdf]
-- see summary on HFSP website[link]
Dancing Volvox:
Hydrodynamic bound states of swimming algae
K. Drescher, K.C. Leptos, I. Tuval, T. Ishikawa, T.J. Pedley,
R.E. Goldstein
Physical Review Letters 102, 168101 (2009). [pdf] [arxiv] [videos: 1, 2] [PRL cover, waltzing]
-- see viewpoint by H. Stark in Physik
Journal [pdf]
-- see highlights in Nature [pdf], New
Scientist [link]
-- and highlights in Science Now [link], Science
News [link], Physics
World [link]
-- see news by Wissenschaft [link], Smithsonian
[link],
BBSRC [link],
Times of India [link],
etc.
How to track protists
in three dimensions
K. Drescher, K.C. Leptos, R.E. Goldstein
Review of Scientific Instruments 80, 014301 (2009). [pdf] [arxiv]
Comparison of
hypercapnia-based calibration techniques for measurement of cerebral
oxygen metabolism with MRI
D.P. Bulte, K. Drescher, P. Jezzard
Magnetic Resonance in Medicine 61, 391-398 (2009). [pdf]