Biopolymer Networks : Design, Dynamics and Discovery.

Format:

Book

Author/Creator:

Robertson-Anderson, Rae M.

Series:

Biophysical Society-IOP Series

Language:

English

Subjects (All):

Biopolymers.

Polymer networks.

Physical Description:

1 online resource (430 pages)

Edition:

1st ed.

Place of Publication:

Bristol : Institute of Physics Publishing, 2023.

Summary:

This reference text provides a comprehensive overview of biopolymer networks written for an interdisciplinary audience of researchers in physics, biophysics, cell biology, materials science, engineering, and chemistry.

Contents:

Intro

Acknowledgments

Author biography

Rae M Robertson-Anderson

Chapter Introduction to biopolymers and their networks

1.1 Polymers 101

1.1.1 Non-Newtonian fluid properties

1.1.2 Newtonian fluids and viscosity

1.1.3 Solids and elasticity

1.1.4 Viscoelasticity

1.1.5 Viscoelasticity in biology

1.2 Biopolymer basics

1.2.1 Nucleic acids

1.2.2 Cytoskeleton filaments

1.2.3 Mucins

1.2.4 Intrinsically disordered proteins (IDPs)

1.2.5 And more…

1.3 Biopolymer networks in biology

1.4 Biopolymer networks in physics and engineering

1.4.1 Elucidating polymer physics concepts

1.4.2 Materials applications

1.5 What next?

1.5.1 Open questions

1.5.2 What to expect

References

Chapter Polymer physics for everyone

2.1 The beauty of polymer physics

2.1.1 Scaling laws

2.1.2 What to expect

2.2 Polymer flexibility

2.3 Single polymer conformations

2.3.1 Freely jointed chain model

2.3.2 Polymer-solvent interactions and the Zimm model

2.3.3 Overlapping polymers and the Rouse model

2.3.4 Entanglements and the reptation model

2.4 Single polymer dynamics

2.4.1 Dilute solutions

2.4.2 Semidilute solutions

2.4.3 Entangled solutions

2.5 Beyond the standard tube model

2.5.1 Constraint release

2.5.2 Tube dilation

2.5.3 Contour length fluctuations

2.6 Rheology

2.6.1 Defining linear viscoelastic moduli

2.6.2 Predicted linear viscoelastic scaling laws

2.7 Semiflexible polymers

2.7.1 Worm-like chain model

2.7.2 Cooperativity

2.7.3 When semiflexible polymers are stiffer

2.8 Rigid rod polymers

2.9 Crosslinked polymer networks

2.10 Nonlinear viscoelasticity

2.10.1 Stiffening and softening

2.10.2 Convective constraint release

2.10.3 Power-law force relaxation

2.11 To be continued ...

References.

Chapter Measuring mechanics, dynamics, and structure

3.1 Direct imaging of biopolymers

3.1.1 Epifluorescence microscopy

3.1.2 Laser scanning confocal microscopy

3.1.3 Total internal reflection fluorescence microscopy

3.1.4 Light-sheet microscopy

3.2 Direct measurements of force, stress, and dynamics

3.2.1 Optical tweezers

3.2.2 Magnetic tweezers

3.2.3 Atomic force microscopy

3.2.4 Dynamic light scattering

3.2.5 Bulk rheology

3.3 What's next

Chapter Analysis methods, algorithms, and deliverables

4.1 Single-molecule center-of-mass tracking

4.1.1 Framework and considerations

4.1.2 Characterizing transport

4.1.3 Conformational analysis

4.2 Single-particle tracking (SPT)

4.2.1 Single-particle tracking microrheology (SPTM)

4.2.2 Two-point microrheology

4.3 Particle-image velocimetry (PIV)

4.4 Differential dynamic microscopy (DDM)

4.4.1 DDM basics

4.4.2 Microrheology considerations

4.4.3 DDM analysis for complex dynamics

4.4.4 And more…

4.5 Spatial image autocorrelation

4.6 Advanced techniques and further reading

Chapter Biopolymer network design, dynamics, and mechanics

5.1 DNA solutions: from dilute to highly entangled

5.1.1 DNA as a model polymer-visualizing the reptation model

5.1.2 Advantages to using DNA

5.1.3 Design considerations

5.1.4 Network dynamics

5.2 Entangled and crosslinked actin networks

5.2.1 Actin as a model semiflexible polymer-visualizing the reptation model

5.2.2 Advantages to using actin

5.2.3 Design considerations

5.2.4 Network dynamics

5.3 Entangled and crosslinked networks of microtubules

5.3.1 Microtubules as an advantageous model rigid rod polymer

5.3.2 Design considerations

5.3.3 Network dynamics

5.4 Intermediate filament (IF) networks.

5.4.1 Intermediate filaments as diverse and tunable flexible polymers

5.4.2 Design considerations

5.4.3 Network dynamics

5.5 Canonical building blocks for complex biopolymer networks

Chapter Networks of topologically-novel biopolymers

6.1 Relaxed circular (ring) biopolymers

6.1.1 Single ring dynamics

6.1.2 Unentangled ring DNA solutions

6.1.3 Entangled ring DNA

6.2 Supercoiled circular biopolymers

6.3 Concatenated ring biopolymers

6.4 Branched biopolymers

6.4.1 Branched DNA

6.4.2 Self-associating DNA nanostars

6.4.3 Mucins

6.5 Building in complexity

Chapter Biopolymer composites, blends, and crowding

7.1 Biopolymer blends

7.1.1 Ring-linear DNA blends

7.1.2 Ring-supercoiled blends

7.2 Biopolymer composites

7.2.1 DNA-actin composites

7.2.2 DNA-microtubule composites

7.2.3 DNA-dextran composites

7.2.4 Actin-microtubule composites

7.2.5 Composites of actin and intermediate filaments

7.2.6 Composites of microtubules and intermediate filaments

7.2.7 Vimentin-actin-microtubule composites

7.3 Considerations and outlook

Chapter Active, responsive, and reconfigurable networks

8.1 Motor-driven cytoskeleton networks

8.1.1 Actomyosin networks

8.1.2 Other contractile actin networks

8.1.3 Kinesin-microtubule networks

8.1.4 Motor-driven cytoskeleton composites

8.2 Chemically-triggered biopolymer networks

8.2.1 Salt-triggered bulk contraction

8.2.2 Microrheology of chemically-triggered cytoskeleton networks

8.3 Non-equilibrium DNA networks

8.3.1 Motor-driven DNA networks

8.3.2 Topologically-active DNA networks

8.4 Considerations and outlook

Chapter Self-assembly and phase separation

9.1 Beyond local heterogeneity

9.2 Introduction to liquid-liquid phase separation (LLPS).

9.3 Crowding and liquid-liquid phase separation

9.4 Complex coacervates

9.5 LLPS of intrinsically disordered proteins

9.6 LLPS of nucleic acids

9.7 Structurally heterogeneous condensates

9.8 Active and dynamic liquid-liquid phase separation

9.9 Viscoelastic phase separation (VPS)

9.10 Considerations and outlook

Chapter Past, present, and future: perspectives from the community

10.1 What we have learned

10.2 What we are still learning

10.3 Who 'we' are and what we think

10.4 What are the big open questions in the field of biopolymer networks?

10.5 What is needed in the research community to make advances in the field?

10.5.1 Collaboration

10.5.2 Synthesis

10.5.3 Theory

10.5.4 Methods

10.6 What is a 'must-read' for anyone interested in learning more about the field?

Outline placeholder

Chapter 1

Chapter 2

Chapter 3

Chapter 4

Chapter 5

Chapter 6

Chapter 7

Chapter 8

Chapter 9.

Notes:

Description based on publisher supplied metadata and other sources.

Part of the metadata in this record was created by AI, based on the text of the resource.

ISBN:

9780750350372

0750350377

OCLC:

1453335486