Small Methods,
Journal Year:
2024,
Volume and Issue:
unknown
Published: March 1, 2024
Abstract
Atomic
Force
Microscopy
(AFM),
High‐Speed
AFM
(HS‐AFM)
simulation
AFM,
and
Localization
(LAFM)
enable
the
study
of
molecules
surfaces
with
increasingly
higher
spatiotemporal
resolution.
However,
effective
rapid
analysis
images
movies
produced
by
these
techniques
can
be
challenging,
often
requiring
use
multiple
image
processing
software
applications
scripts.
Here,
NanoLocz,
an
open‐source
solution
that
offers
advanced
capabilities
for
community,
is
presented.
Integration
continued
development
tools
essential
to
improve
access
data,
increase
throughput,
open
new
opportunities.
NanoLocz
efficiently
leverages
rich
data
has
offer
incorporating
combining
existing
newly
developed
methods
HS‐AFM,
LAFM
seamlessly.
It
facilitates
streamlines
workflows
from
import
raw
through
various
workflows.
demonstrates
it
enables
including
single‐molecule
LAFM,
time‐resolved
LAFM.
Advanced Science,
Journal Year:
2023,
Volume and Issue:
10(17)
Published: April 19, 2023
Chronic
wounds
in
diabetic
patients
are
challenging
because
their
prolonged
inflammation
makes
healing
difficult,
thus
burdening
patients,
society,
and
health
care
systems.
Customized
dressing
materials
needed
to
effectively
treat
such
that
vary
shape
depth.
The
continuous
development
of
3D-printing
technology
along
with
artificial
intelligence
has
increased
the
precision,
versatility,
compatibility
various
materials,
providing
considerable
potential
meet
abovementioned
needs.
Herein,
functional
inks
comprising
DNA
from
salmon
sperm
DNA-induced
biosilica
inspired
by
marine
sponges,
developed
for
machine
learning-based
wound
dressings.
biomineralized
silica
incorporated
into
hydrogel
a
fast,
facile
manner.
3D-printed
generates
provided
appropriate
porosity,
characterized
effective
exudate
blood
absorption
at
sites,
mechanical
tunability
indicated
good
fidelity
printability
during
optimized
3D
printing.
Moreover,
act
as
nanotherapeutics,
enhancing
biological
activity
dressings
terms
reactive
oxygen
species
scavenging,
angiogenesis,
anti-inflammation
activity,
thereby
accelerating
acute
healing.
These
bioinspired
hydrogels
produce
using
biomineralization
strategy
an
excellent
platform
clinical
applications
chronic
repair.
Lab on a Chip,
Journal Year:
2022,
Volume and Issue:
23(5), P. 982 - 1010
Published: Nov. 1, 2022
Manipulation
and
separation
of
submicron
nanoparticles
are
indispensable
in
many
chemical,
biological,
medical,
environmental
applications.
Conventional
technologies
such
as
ultracentrifugation,
ultrafiltration,
size
exclusion
chromatography,
precipitation
immunoaffinity
capture
limited
by
high
cost,
low
resolution,
purity
or
the
risk
damage
to
biological
particles.
Microfluidics
can
accurately
control
fluid
flow
channels
with
dimensions
tens
micrometres.
Rapid
microfluidics
advancement
has
enabled
precise
sorting
isolating
better
resolution
efficiency
than
conventional
technologies.
This
paper
comprehensively
studies
latest
progress
microfluidic
technology
for
nanoparticle
manipulation.
We
first
summarise
principles
traditional
techniques
manipulating
nanoparticles.
Following
classification
active,
passive,
hybrid
approaches,
we
elaborate
on
physics,
device
design,
working
mechanism
applications
each
technique.
also
compare
merits
demerits
different
benchmark
them
Concurrently,
seven
standard
post-separation
detection
Finally,
discuss
current
challenges
future
perspectives
manipulation
separation.
Chemical Reviews,
Journal Year:
2022,
Volume and Issue:
122(17), P. 14055 - 14065
Published: Feb. 8, 2022
While
the
application
of
cryogenic
electron
microscopy
(cryo-EM)
to
helical
polymers
in
biology
has
a
long
history,
due
huge
number
macromolecular
assemblies
viruses,
bacteria,
archaea,
and
eukaryotes,
use
cryo-EM
study
synthetic
soft
matter
noncovalent
been
much
more
limited.
This
mainly
lack
familiarity
with
materials
science
chemistry
communities,
contrast
fact
that
was
developed
as
biological
technique.
Nevertheless,
relatively
few
structures
self-assembled
peptide
nanotubes
ribbons
solved
at
near-atomic
resolution
by
have
demonstrated
should
be
method
choice
for
structural
analysis
filaments.
In
addition,
also
self-assembly
enormous
potential
polymorphism,
something
may
obscured
techniques
such
scattering
spectroscopy.
These
revealed
how
far
we
currently
are
from
being
able
predict
structure
these
their
chaotic
behavior.
PLoS Computational Biology,
Journal Year:
2022,
Volume and Issue:
18(3), P. e1009970 - e1009970
Published: March 16, 2022
Atomic
force
microscopy
(AFM)
can
visualize
the
dynamics
of
single
biomolecules
under
near-physiological
conditions.
However,
scanning
tip
probes
only
molecular
surface
with
limited
resolution,
missing
details
required
to
fully
deduce
functional
mechanisms
from
imaging
alone.
To
overcome
such
drawbacks,
we
developed
a
computational
framework
reconstruct
3D
atomistic
structures
AFM
scans,
employing
simulation
and
automatized
fitting
experimental
images.
We
provide
applications
images
ranging
machines,
protein
filaments,
large-scale
assemblies
2D
lattices,
demonstrate
how
obtained
full
information
advances
understanding
beyond
original
topographic
image.
show
that
further
allows
for
quantitative
feature
assignment
within
measured
topographies.
Implementation
methods
into
versatile
interactive
interface
BioAFMviewer
software,
freely
available
at
www.bioafmviewer.com,
presents
opportunity
broad
Bio-AFM
community
employ
enormous
amount
existing
structural
modeling
data
facilitate
interpretation
resolution-limited
Nature Communications,
Journal Year:
2023,
Volume and Issue:
14(1)
Published: Feb. 9, 2023
Abstract
RNA
flexibility
is
reflected
in
its
heterogeneous
conformation.
Through
direct
visualization
using
atomic
force
microscopy
(AFM)
and
the
adenosylcobalamin
riboswitch
aptamer
domain
as
an
example,
we
show
that
a
single
sequence
folds
into
conformationally
architecturally
structures
under
near-physiological
solution
conditions.
Recapitulated
3D
topological
from
AFM
molecular
surfaces
reveal
all
conformers
share
same
secondary
structural
elements.
Only
population-weighted
cohort,
not
any
conformer,
including
crystal
structure,
can
account
for
ensemble
behaviors
observed
by
small-angle
X-ray
scattering
(SAXS).
All
except
one
are
functionally
active
terms
of
ligand
binding.
Our
findings
provide
visual
evidence
sequence-structure
relationship
physiologically
relevant
conditions
more
complex
than
one-to-one
well-structured
proteins.
The
conformational
architectural
ensembles
at
single-molecule
level
may
suggest
new
approaches
to
analyses.
Environmental Science & Technology,
Journal Year:
2022,
Volume and Issue:
56(12), P. 7426 - 7447
Published: May 18, 2022
Analysis
and
characterization
of
naturally
occurring
engineered
nanomaterials
in
the
environment
are
critical
for
understanding
their
environmental
behaviors
defining
real
exposure
scenarios
risk
assessment.
However,
this
is
challenging
primarily
due
to
low
concentration,
structural
heterogeneity,
dynamic
transformation
complex
matrices.
In
review,
we
first
summarize
sample
pretreatment
methods
developed
separation
preconcentration
from
samples,
including
natural
waters,
wastewater,
soils,
sediments,
biological
media.
Then,
review
state-of-the-art
microscopic,
spectroscopic,
mass
spectrometric,
electrochemical,
size-fractionation
determination
number
abundance,
as
well
morphological,
compositional,
properties
nanomaterials,
with
discussion
on
advantages
limitations.
Despite
recent
advances
detecting
characterizing
environment,
challenges
remain
improve
analytical
sensitivity
resolution
expand
method
applications.
It
important
develop
simultaneous
multifaceted
nanomaterial
situ
analysis
under
conditions
detection
nanoscale
contaminants
emerging
concern
(e.g.,
nanoplastics
nanoparticles),
which
will
greatly
facilitate
standardization
samples.
Applied Sciences,
Journal Year:
2023,
Volume and Issue:
13(4), P. 2236 - 2236
Published: Feb. 9, 2023
Natural
organic
matter,
including
humic
substances
(HS),
comprises
complex
secondary
structures
with
no
defined
covalent
chemical
bonds
and
stabilized
by
inter-
intra-molecular
interactions,
such
as
hydrogen
bonding,
Van
der
Waal’s
forces,
pi-pi
interactions.
The
latest
view
describes
HS
aggregates
a
hydrogel-like
structure
comprised
hydrophobic
core
of
aromatic
residues
surrounded
polar
amphiphilic
molecules
akin
self-assembled
soft
material.
A
different
is
based
on
the
classification
this
material
either
mass
or
surface
fractals.
former
intended
made
clustering
macromolecules
generating
dendritic
networks,
while
latter
have
been
modelled
in
terms
solvent-impenetrable
layer
lyophilic
This
study
reviews
evolution
increasingly
refined
models
that
appeared
literature,
all
capable
to
describing
physicochemical
properties
HS.
All
are
critically
examined
revisited
their
ability
provide
key
information
structural
organization
Understanding
how
molecular
association
pathway
influences
aggregation
also
provides
acknowledgment
role
environment.