Journal of Clinical and Translational Hepatology,
Год журнала:
2023,
Номер
12(1), С. 36 - 51
Опубликована: Авг. 25, 2023
Background
and
AimsDevelopment
of
fibrosis
in
chronic
liver
disease
requires
activation
hepatic
stellate
cells
(HSCs)
leads
to
a
poor
outcome.
Artesunate
(Art)
is
an
ester
derivative
artemisinin
that
can
induce
ferroptosis
HSCs,
activated
transcriptional
factor
3
(ATF3)
ATF/CREB
transcription
induced
response
stress.
In
this
study,
we
examined
the
role
Rho-associated
protein
kinase
1
(ROCK1)/ATF3
axis
Art-induced
HSCs.
Cold Spring Harbor Perspectives in Biology,
Год журнала:
2021,
Номер
14(2), С. a040683 - a040683
Опубликована: Июнь 14, 2021
Karsten
Rippe
Division
of
Chromatin
Networks,
German
Cancer
Research
Center
(DKFZ)
and
Bioquant,
69120
Heidelberg,
Germany
Correspondence:
Karsten.Rippe{at}dkfz.de
Nature Genetics,
Год журнала:
2023,
Номер
56(1), С. 100 - 111
Опубликована: Дек. 4, 2023
Abstract
Chromatin
accessibility
is
a
hallmark
of
active
transcription
and
entails
ATP-dependent
nucleosome
remodeling,
which
carried
out
by
complexes
such
as
Brahma-associated
factor
(BAF).
However,
the
mechanistic
links
between
transcription,
remodeling
chromatin
are
unclear.
Here,
we
used
chemical–genetic
approach
coupled
with
time-resolved
profiling
to
dissect
interplay
RNA
Polymerase
II
(RNAPII),
BAF
DNA-sequence-specific
factors
in
mouse
embryonic
stem
cells.
We
show
that
dynamically
unwraps
evicts
nucleosomes
at
accessible
regions,
while
RNAPII
promoter-proximal
pausing
stabilizes
occupancy
enhances
eviction
BAF.
find
although
probe
both
transcriptionally
Polycomb-repressed
genomic
pluripotency
binding
confers
locus
specificity
for
productive
Our
study
suggests
paradigm
how
functional
synergy
acting
regulates
locus-specific
organization
accessibility.
International Journal of Molecular Sciences,
Год журнала:
2022,
Номер
23(4), С. 2351 - 2351
Опубликована: Фев. 21, 2022
The
basic
leucine
zipper
(bZIP)
regulates
plant
growth
and
responds
to
stress
as
a
key
transcription
factor
of
the
Abscisic
acid
(ABA)
signaling
pathway.
In
this
study,
TabZIP
genes
were
identified
in
wheat
gene
structure,
physicochemical
properties,
cis-acting
elements,
collinearity
analyzed.
RNA-Seq
qRT-PCR
analysis
showed
that
ABA
abiotic
induced
most
expression.
ectopic
expression
TaABI5
up-regulated
several
cold-responsive
Arabidopsis.
Physiological
indexes
seedlings
different
lines
under
freezing
enhanced
tolerance
plants.
Subcellular
localization
is
localized
nucleus.
Furthermore,
physically
interacted
with
cold-resistant
TaICE1
yeast
two-hybrid
system.
conclusion,
study
analyzed
members
family
wheat.
It
proved
for
first
time
affected
cold
transgenic
plants
was
convenient
us
understand
resistance
molecular
mechanism
TaABI5.
These
results
will
provide
new
inspiration
further
on
improving
resistance.
Biophysical Journal,
Год журнала:
2022,
Номер
121(9), С. 1583 - 1592
Опубликована: Март 23, 2022
Transcription,
the
process
of
copying
genetic
information
from
DNA
to
messenger
RNA,
is
regulated
by
sequence-specific
DNA-binding
proteins
known
as
transcription
factors
(TFs).
Recent
advances
in
single-molecule
tracking
(SMT)
technologies
have
enabled
visualization
individual
TF
molecules
they
diffuse
and
interact
with
context
living
cells.
These
SMT
studies
uncovered
multiple
populations
events
characterized
their
distinctive
residence
times.
In
this
perspective,
we
review
recent
insights
into
how
these
times
relate
specific
non-specific
binding,
well
contribution
domains
on
dynamics.
We
discuss
different
models
that
aim
link
transient
binding
TFs
bursts
present
an
outlook
for
future
microscopy
development
may
broaden
our
understanding
dynamics
molecular
steps
underlie
activation.
Biochemical Society Transactions,
Год журнала:
2023,
Номер
51(2), С. 557 - 569
Опубликована: Март 6, 2023
How
molecules
interact
governs
how
they
move.
Single-molecule
tracking
(SMT)
thus
provides
a
unique
window
into
the
dynamic
interactions
of
biomolecules
within
live
cells.
Using
transcription
regulation
as
case
study,
we
describe
SMT
works,
what
it
can
tell
us
about
molecular
biology,
and
has
changed
our
perspective
on
inner
workings
nucleus.
We
also
cannot
yet
new
technical
advances
seek
to
overcome
its
limitations.
This
ongoing
progress
will
be
imperative
address
outstanding
questions
machines
function
in
Nature Communications,
Год журнала:
2023,
Номер
14(1)
Опубликована: Окт. 13, 2023
Nuclear
factors
rapidly
scan
the
genome
for
their
targets,
but
role
of
nuclear
organization
in
such
search
is
uncharted.
Here
we
analyzed
how
multiple
explore
chromatin,
combining
live-cell
single-molecule
tracking
with
multifocal
structured
illumination
DNA
density.
We
find
that
displaying
higher
bound
fractions
sample
DNA-dense
regions
more
exhaustively.
Focusing
on
tumor-suppressor
p53,
demonstrate
it
searches
targets
by
alternating
between
rapid
diffusion
interchromatin
compartment
and
compact
sampling
chromatin
dense
regions.
Efficient
targeting
requires
balanced
interactions
chromatin:
fusing
p53
an
exogenous
intrinsically
disordered
region
potentiates
p53-mediated
target
gene
activation
at
low
concentrations,
leads
to
condensates
levels,
derailing
its
downregulating
transcription.
Our
findings
highlight
showcase
a
powerful
method
generate
traffic
maps
eukaryotic
nucleus
dissect
guides
action.
Cell Reports,
Год журнала:
2022,
Номер
41(5), С. 111567 - 111567
Опубликована: Ноя. 1, 2022
To
infer
potential
causal
relationships
between
3D
chromatin
structure,
enhancers,
and
gene
transcription,
we
mapped
each
feature
in
a
genome-wide
fashion
across
eight
narrowly
spaced
time
points
of
macrophage
activation.
Enhancers
genes
connected
by
loops
exhibit
stronger
correlations
histone
H3K27
acetylation
expression
than
can
be
explained
genomic
distance
or
physical
proximity
alone.
At
these
looped
enhancer-promoter
pairs,
changes
at
distal
enhancers
precede
expression.
Changes
directional
bias
differential
loop
anchors;
gained
are
associated
with
increased
oriented
away
from
the
center
loop,
lost
often
accompanied
high
levels
transcription
within
boundaries
themselves.
These
results
consistent
reciprocal
relationship
where
facilitate
connecting
promoters
to
whereas
impede
formation.
