GRC/S Single Molecule Approaches to Biology

a) Number: 54

b) Institution: St. Judes

c) Technique: Many (FRET/EM/…)

d) Target: Many

e) Takeaway:Keynote lecture, humble brag

f) Attn.:

Parallel Stopped-Flow Interrogation of Diverse Biological Systems at the Single-Molecule Scale"

Scott Blanchard

a) Number: 53 (*)

b) Institution: Nanjing Uni.

c) Technique: Protein Nanopore

d) Target: So many things, very cool to learn about

e) Takeaway: You can sense almost everything with nanopores

f) Attn.:

Nanopore Multiomics"

Shuo Huang

a) Number: 52

b) Institution: Isr. IT

c) Technique: Nanopore

d) Target:

e) Takeaway: (Missed this talk)

f) Attn.:

Nanopores and Nanofluidics for Label and Label Free Single-Molecule Biosensing"

Amit Meller

a) Number: 51

b) Institution: Central South University (China)

c) Technique: 2D Nanopore

d) Target:

e) Takeaway:

f) Attn.:

Solid-State Nanopore for High Precision Single-Molecule Measurement"

Rui Hu

a) Number: 50

b) Institution: U. Groningen

c) Technique: Nanopore

d) Target: Proteomics

e) Takeaway: Seem to be approaching realistic proteomics

f) Attn.: ZJN

Single-Molecule Nanopores Proteomics"

Giovanni Maglia

a) Number: 49

b) Institution: Harvard Medical

c) Technique: DNA Nanoswitch Calipers / Optical Tweezers

d) Target: Proteomics

e) Takeaway:

f) Attn.: ZJN

Towards Mechanostructural Proteomics with High-throughput DNA Nanoswitch Calipers"

Wesley Wong

a) Number: 48

b) Institution: Oxford (Sushanta’s old PI)

c) Technique: Narrow Escape/Molecular Stereometry

d) Target:TechDev/SAM-IV

e) Takeaway: Really creative and elegant

f) Attn.:

Molecular Stereometry: The Narrow-Escape Problem Meets Structural Biology"

Madhavi Krishnan

a) Number: 46

b) Institution: Imperial College London

c) Technique: FRET/C-Trap

d) Target: Chromatin, SWR1

e) Takeaway: Cool findings

f) Attn.: Alev/Kiarra

Dynamic Control of Chromatin Architecture and DNA Resolution"

David Rueda

a) Number: 45

b) Institution:Shenzen Bay Labs

c) Technique: 3D SPT/3D-SMART

d) Target: Condensates

e) Takeaway:

f) Attn.:

Multidimensional Single-molecule Dynamics Imaging with 3D Target-locking Tracking"

Shangguo Hou

a) Number: 44

b) Institution: NIH

c) Technique: ABEL-FRET

d) Target:RNA/Ribo assembly with CAS9

e) Takeaway:Figures out layout of RNA in CAS9

f) Attn.: Alev/Kiarra

Direct Visualization of RNA Acting as a Dynamic Scaffold along Ribonucleoprotein Assembly in CRISPR-Cas9 Using

ABEL-FRET"

Bok-Eum Choi

a) Number: 43

b) Institution: Uni. Regensburg

c) Technique: SLAM FRET

d) Target: Archea/Argonaut Protein

e) Takeaway: dicer is chaperone for loading Argonaut

f) Attn.: Alev/Kiarra

From Method to Mechanisms: SLAM-FRET Enables Single-Molecule Analysis of Dynamic Human RNA Machineries"

Dina Grohmann

a) Number:41

b) Institution: Technion

c) Technique: Opt. Tweezer

d) Target: Transcription Machinery / DNA Unzipping

e) Takeaway:

f) Attn.:

Disordered Regions Facilitate Target Search and Promoter Selectivity by a Transcription Factor"

Ariel Kaplan

a) Number: 40

b) Institution: VU Amsterdam

c) Technique: Mag-Tweezers / TIRF

d) Target: Protein Reactions

e) Takeaway:

f) Attn.:

"High-Throughput Correlative Magnetic Tweezers–TIRF to Investigate Biomolecular Reactions at the Single-Molecule

Level"

David Dulin

a) Number: 39

b) Institution: Harvard

c) Technique: Cathodophores for EM

d) Target:

e) Takeaway: Nothing New. They have given up on UCNP cathodophores due to poor functionalization on their end.

f) Attn.:

Multicolor Electron Microscopy via Cathodoluminescence"

Maxim Prigozhin

a) Number:38

b) Institution: Oxford

c) Technique: Mass Photometry for sequencing proteins

d) Target: Tech Dev

e) Takeaway: Cool, seems far from proteomics, especially in situ

f) Attn.:

Multiplexed Single Protein Profiling in Complex Media by DNA-Origami Assisted Mass Photometry"

Seham Helmi

a) Number:37

b) Institution: UBC

c) Technique: SPT + Sandwich Microscope

d) Target: MRNA LNP

e) Takeaway: Scary due to glass bending between two objectives

f) Attn.:

"Single-Particle and Single-Cell Microscopy for Next-Generation Genomic Medicines"

Sabrina Leslie

a) Number:36

b) Institution: Institute of optics CRNS U. Bordeux

c) Technique: Carbon Nanotubes for SPT

d) Target:Brain ECS Structure

e) Takeaway: High quality long-term SPT candidate, hard to multiplex it seems.

f) Attn.:

Ultrashort Carbon Nanotubes Uncover Diffusion Dynamics in the Brain Extracellular Space at the Single-Molecule

Level"

Laurent Cognet

a) Number: 35 (*)

b) Institution: Delft U. of T

c) Technique:DNA origami LPFM SAW Sm-SPT

d) Target: hBN

e) Takeaway:Cool nanotech

f) Attn.: Sushanta/Omar JFS

"Nanomechanical Systems for Single-Molecule Biophysics"

Sabina Caneva

a) Number:34

b) Institution:U Virginia

c) Technique:SMLM/SPT with PSF Engineering

d) Target:Type III secretion System (Bacterial Gun)

e) Takeaway: Cool methods for MSD

f) Attn.: Sappy/Ivana

"Cooperative Protein Binding Behaviors at Type III Secretion System Injectisomes Revealed by Live-Cell Single-

Molecule Localization Microscopy"

Andreas Gahlmann

a) Number:33

b) Institution: Ulm Uni

c) Technique: LSM, Fiber illumination + SPT

d) Target:Tech Dev

e) Takeaway:LSM with fiber could become an attachment to off-the-shelf microscopes

f) Attn.: JFS (for citation purposes)

Fiber Light-Sheet Microscopy for Single-Molecule Imaging in Living Multicellular Systems"

J. Christof M. Gebhardt

a) Number:32

b) Institution: MPI

c) Technique:DNA paint + CLEM

d) Target: Tech Dev

e) Takeaway: I am in this paper lol

f) Attn.: JFS

Integrating DNA-PAINT With Electron Microscopy for Ultrastructural Molecular Imaging"

Johannes Stein

a) Number: 31

b) Institution:TU Dresden

c) Technique:Optical Tweezers

d) Target:Bacterial integron

e) Takeaway:

f) Attn.:

"A Journey With the Bacterial Integron From Single-Molecule Biophysics to the Development of Small Molecules"

Michael Schlierf

a) Number: 30

b) Institution: Rice

c) Technique: LSM/Volumetric imaging

d) Target:Fly Emrbyo

e) Takeaway:We know their cool stuff

f) Attn.: Ivana

Light Sheet Microscopy for High-Contrast Volumetric Single-Molecule Imaging"

Anna-Karin Gustavsson

a) Number:29

b) Institution: Wash U St. Louis

c) Technique: SMOLM

d) Target: Condensated

e) Takeaway: Rich and exploratory, lots of cool stuff expected to come from the lab

f) Attn.: Linda (Anisotropy)

Multidimensional Single-Molecule Imaging: Linking Rotational Dynamics to Biological Function"

Matthew Lew

a) Number: 28

b) Institution: Columbia

c) Technique: FRET

d) Target: Eukaryote Translation EIF4F

e) Takeaway: New model from FRET studies

f) Attn.: Alev/Leon

Structural Dynamics of mRNA Recruitment to the Eukaryotic Ribosome"

Ruben Gonzalez

a) Number: 27

b) Institution: Clemson Uni

c) Technique:AFM, Force Spectroscopy , MD

d) Target:GPCR/Membrane proteins

e) Takeaway: Cool

f) Attn.:Kaibo/JFS

"High-Time-Resolution AFM-Based Force Spectroscopy of a G-Protein Coupled Receptor"

David Jacobson

a) Number: 26

b) Institution: UT Austin

c) Technique: FRET

d) Target:Chromatin, Promotors, Enhancers

e) Takeaway: Dynamic Extraction from Contact map works, though this is all published work.

f) Attn.:Leon/ Sushanta

Enhancer-Promoter Dynamics in Chromatin"

Dave Thirumalai

a) Number: 25

b) Institution: Kings College

c) Technique: FRET/EM

d) Target: HIV

e) Takeaway:

f) Attn.: Omar/Alev

Integrative Single Molecule Imaging to Understand HIV-1 Env Conformational Dynamics upon Maturation"

Sergi Padilla-Parra

a) Number:24

b) Institution: EPFL

c) Technique:Time Resolved Cryo EM

d) Target: CCMV

e) Takeaway: Flash melting and re-vitrification gives you dynamics even within cryo-EM. Really cool but with severe limitations

f) Attn.: JFS

Observing Protein Dynamics with Microsecond Time-Resolved Cryo-EM"

Ulrich Lorenz

a) Number:23

b) Institution: LMU Munich/MPI

c) Technique: Denovo Protein Design thru ML

d) Target: Tech Dev

e) Takeaway: You can easily design a denovo protein from sequence, but function still hard

f) Attn.:

Design Principles of Protein Mechanostability"

Lukas Milles

a) Number:21

b) Institution:Riken

c) Technique: SEE N.O 6

d) Target:

e) Takeaway:

f) Attn.:

Kinetic Design of Reversible Probe Exchange Enables Continuous Single-Molecule Tracking Beyond the

Photobleaching Limit"

Yasushi Okada

a) Number: 20

b) Institution: MPI

c) Technique: MD/Sim/Protein Dynamics NN

d) Target: Proteins

e) Takeaway: It works

f) Attn.:

"Designing Dynamics into Proteins"

Frauke Gräter

a) Number: 19

b) Institution: MPI

c) Technique: Cryo EM

d) Target:Protein

e) Takeaway: ~CryoEM but for fluorophores

f) Attn.:Sappy

Angstrom Precision in Cryogenic Localization Microscopy of Proteins in the Native Cell Membrane"

Vahid Sandoghdar

a) Number:18

b) Institution:u Geneva

c) Technique: Nanopores

d) Target: Glycan

e) Takeaway: ?

f) Attn.: Sappy

Single-Molecule Analysis of Glycan Sulfation with a Biological Nanopore"

Chan Cao

a) Number: 17

b) Institution: Peking University

c) Technique: Liquid Phase TEM in Graphene Liquid Cells

d) Target: Polymer Cas9

e) Takeaway:Cool Dynamics

f) Attn.:

"Single-Molecule Liquid Phase Tem Imaging of Biomacromolecules-in-Action"

Huan Wang

a) Number: 16

b) Institution: Caltech

c) Technique: BONFIRE

d) Target: Tech Dev

e) Takeaway: Can do SMLM with IR!

f) Attn.: We have all seen it before, not much new she wanted to show

"Functional Single-Molecule Bond-Selective Microscopy"

Lu Wei

a) Number: 15 (*)

b) Institution: UWM

c) Technique: IR-Label free, Fiber Cavity

d) Target: Amino Acid/Tech Dev

e) Takeaway: Cavities are cool

f) Attn.: JFS

Label-Free Profiling of Solution-Phase Molecules"

Randall Goldsmith

a) Number:14

b) Institution: uPenn

c) Technique: Super-res/SMLM

d) Target: Chromatin

e) Takeaway: High nucleosome density at the edge of the nuclues is a silenced domain

f) Attn.: Sappy

"Super-Resolution Imaging of Chromatin in Health and Disease"

Melike Lakadamyali

a) Number: 13

b) Institution: Delft Uni Tech

c) Technique: Nanotech

d) Target: Chromosome Motor, Protein Sequencing

e) Takeaway: SMC works without loop insertion

f) Attn.:

"Single-Molecule Nanotechnology for Biology: From Chromosome Motors to Protein Sequencing to Building a

Synthetic Cell"

Cees Dekker

a) Number: 12

b) Institution: u freiburg

c) Technique: Upright FRET thru prism

d) Target: HSP90

e) Takeaway: Micro-oscilations lead to ATP intake w woth parties present (model)

f) Attn.: Alev, Leon

Quantifying the Dynamics of the Hsp90-GR Machinery Across Timescales"

Elisa Steyer

a) Number: 11

b) Institution: VU Amsterdam

c) Technique: 4-pole Optical Tweezer

d) Target: Chromosome

e) Takeaway: Centrosomes have DNA entanglement

f) Attn.: Sushanta/Leon

Unravelling the Mechanics and Segregation Dynamics of Mitotic Chromosomes"

Zhaowei Liu

a) Number: 10

b) Institution: Sorbonne

c) Technique: Dye SPT

d) Target: FUS

e) Takeaway: DNA repair condensates repair in ~15 seconds

f) Attn.: Sushanta/Leon

Single-Molecule Tracking of Phase Separating FUS During Early Stages of DNA Repair"

Asaki Kobayash

a) Number:9

b) Institution: Imperial College london

c) Technique: FRET

d) Target: DNA compation protein in bacteriophage

e) Takeaway:TONY binds distant DNA toghether

f) Attn.: Alev Sushanta Leon Bin Zhang

"DNA Compaction in the Predatory Bacterium Bdellovibrio Bacteriovorus"

Aida Sanchez Rico

a) Number:8

b) Institution:UZurich

c) Technique:SM fret

d) Target:NEIL1 + DNA

e) Takeaway: NEIL1 moves around DNA helix in 1-D cylinder motion

f) Attn.: Alev

Disordered Regions Speed Up Diffusive Search of Proteins on DNA: A Threefold Single-Molecule Study Combining

Optical Tweezers, smFRET, and Simulations"

Jan-Philipp Krämer-Günther

a) Number:7

b) Institution: Columbia

c) Technique: SPT tracking thru GNN

d) Target: Tracks

e) Takeaway: Exatrack works kinda ok

f) Attn.: JFS/ZJN

Analyzing Tracks with Complex Types of Motion and Time-Dependent State Transitions"

Francois Simon

a) Number:6

b) Institution: Riken

c) Technique: Transient labeling

d) Target: Tech Dev

e) Takeaway: You can use Kon and kOff and framerate to calculate where in the phasespace you need to be for continuous signal

f) Attn.:

"Kinetic Design of Reversible Probe Exchange Enables Continuous Single-Molecule Tracking Beyond the

Photobleaching Limit"

Toshikuni Awazu

a) Number:5

b) Institution: MPI

c) Technique:Minflux

d) Target:Multi-emmiter DNA origami

e) Takeaway: You can minflux multiple emmiters

f) Attn.: Claire?

"Tracking Nanometer-Scale Distances Between Simultaneously Emitting Fluorophores Using an Excitation

Minimum"

Ole L. Schwarz

a) Number: 4

b) Institution: Jawaharlal Nehru Centre for Advanced Scientific Research (JNCASR)

c) Technique: ExM (4x), DNA paint

d) Target: Protein

e) Takeaway: Post-dense labeling can be done very efficiently thru host-guest paint-like techniques

f) Attn.: JFS/zJN/SAppy

Expansion-PAINT in Distilled Water"

Ritika Raghuvansh

a) Number:3

b) Institution:Rice

c) Technique:Optical tweezers

d) Target: Protein DNA condensates

e) Takeaway:

f) Attn.:

"Surface Interaction-Free, Low-Volume, High-Throughput Magnetic Tweezers for Protein/DNA Co-Condensate Study"

Viraj Ghosh

a) Number:2

b) Institution: FZU

c) Technique: Interpherometric scattering for Mass Spec

d) Target: Proteins

e) Takeaway: Tech Dev Works

f) Attn.:

"High-Resolution Single-Molecule Mass Measurement of Megadalton Assemblies in Solution"

Tereza Roesel

a) Number:1

b) Institution: EPFL

c) Technique:Sim, Automated, STORM, DNA paint

d) Target:utubules, Mitochondria

e) Takeaway: Nucleosome Beading in mitochondria + splitting

f) Attn.:JFS/GM

"Smart, Adaptive Microscopies for Gentler Imaging from Molecules to Assemblies"

Suliana Manley