bioRxiv (Cold Spring Harbor Laboratory),
Год журнала:
2024,
Номер
unknown
Опубликована: Май 22, 2024
Abstract
The
formation
of
biomolecular
condensates
contributes
to
intracellular
compartmentalization,
and
plays
an
important
role
in
many
cellular
processes.
characterization
is
however
challenging,
requiring
advanced
biophysical
or
biochemical
methods
that
are
often
less
suitable
for
vivo
studies.
A
particular
need
easily
accessible
yet
thorough
enable
the
across
different
experimental
systems
thus
remains.
To
address
this,
we
present
PhaseMetrics,
a
semi-automated
FIJI-based
image
analysis
pipeline
tailored
quantifying
particle
properties
from
microscopy
data.
Tested
using
FG-domain
yeast
nucleoporin
Nup100,
PhaseMetrics
accurately
assesses
diverse
setups,
including
vitro
,
Xenopus
egg
extracts,
systems.
It
reliably
detects
changes
induced
by
various
conditions
such
as
presence
polyethylene
glycol,
1,6-hexanediol,
salt
gradient,
molecular
chaperone
DNAJB6b.
By
enabling
accurate
representation
variability
within
population
detection
subtle
at
single
level,
method
complements
conventional
assays.
Combined,
accessible,
customizable
enables
imaging-based
quantitative
assessment
cells,
providing
valuable
addition
current
toolbox.
RNA
binding
proteins
(RBPs)
containing
intrinsically
disordered
regions
(IDRs)
are
present
in
diverse
molecular
complexes
where
they
function
as
dynamic
regulators.
Their
characteristics
promote
liquid-liquid
phase
separation
(LLPS)
and
the
formation
of
membraneless
organelles
such
stress
granules
nucleoli.
IDR-RBPs
particularly
relevant
nervous
system
their
dysfunction
is
associated
with
neurodegenerative
diseases
brain
tumor
development.
Serpine1
mRNA-binding
protein
1
(SERBP1)
a
unique
member
this
group,
being
mostly
lacking
canonical
RNA-binding
domains.
We
defined
SERBP1’s
interactome,
uncovered
novel
roles
splicing,
cell
division
ribosomal
biogenesis,
showed
its
participation
pathological
Tau
aggregates
Alzheimer’s
brains.
SERBP1
preferentially
interacts
other
G-quadruplex
(G4)
binders,
implicated
different
stages
gene
expression,
suggesting
that
G4
critical
component
settings.
Similarly,
we
identified
important
associations
between
PARP1/polyADP-ribosylation
(PARylation).
PARP1
factors
influences
PARylation.
Moreover,
which
participates
contain
PARylated
PAR
binders.
Based
on
these
results,
propose
feedback
regulatory
model
PARylation,
while
PARylation
modulates
functions
complexes.
Abstract
A
rapidly
evolving
understanding
of
phase
separation
in
the
biological
and
physical
sciences
has
led
to
redefining
virus-engineered
replication
compartments
many
viruses
with
RNA
genomes.
Condensation
viral,
host
genomic
subgenomic
RNAs
can
take
place
evade
innate
immunity
response
help
viral
replication.
Divergent
prompt
liquid–liquid
(LLPS)
invade
cell.
During
HIV
there
are
several
steps
involving
LLPS.
In
this
review,
we
characterize
ability
individual
partners
that
assemble
into
biomolecular
condensates
(BMCs).
Of
note,
bioinformatic
analyses
predict
models
line
published
observations.
Importantly,
BMCs
contribute
function
key
retroviral
For
example,
reverse
transcription
takes
within
nuclear
BMCs,
called
HIV-MLOs
while
during
late
steps,
nucleocapsid
acts
as
a
driver
or
scaffold
recruit
client
components
aid
assembly
progeny
virions.
Overall,
LLPS
infections
represents
newly
described
event
now
appreciated
virology
field,
also
be
considered
an
alternative
pharmacological
target
current
drug
therapies
especially
when
become
resistant
antiviral
treatment.
International Journal of Molecular Sciences,
Год журнала:
2023,
Номер
24(4), С. 3281 - 3281
Опубликована: Фев. 7, 2023
To
date,
it
has
been
shown
that
the
phenomenon
of
liquid-liquid
phase
separation
(LLPS)
underlies
many
seemingly
completely
different
cellular
processes.
This
provided
a
new
idea
spatiotemporal
organization
cell.
The
paradigm
makes
possible
to
provide
answers
long-standing,
but
still
unresolved
questions
facing
researcher.
In
particular,
regulation
assembly/disassembly
cytoskeleton,
including
formation
actin
filaments,
becomes
clearer.
coacervates
actin-binding
proteins
arise
during
type
can
integrate
G-actin
and
thereby
increase
its
concentration
initiate
polymerization.
It
also
activity
intensification
control
polymerization,
such
as
N-WASP
Arp2/3,
be
caused
by
their
integration
into
liquid
droplet
formed
signaling
on
inner
side
cell
membrane.
Life,
Год журнала:
2024,
Номер
14(10), С. 1307 - 1307
Опубликована: Окт. 15, 2024
Obviously,
the
discussion
of
different
factors
that
could
have
contributed
to
origin
life
and
evolution
is
clear
speculation,
since
there
no
way
checking
validity
most
related
hypotheses
in
practice,
as
corresponding
events
not
only
already
happened,
but
took
place
a
very
distant
past.
However,
are
few
undisputable
facts
present
at
moment,
such
existence
wide
variety
living
forms
abundant
presence
intrinsically
disordered
proteins
(IDPs)
or
hybrid
containing
ordered
domains
regions
(IDRs)
all
forms.
Since
it
seems
currently
existing
originated
from
common
ancestor,
their
result
evolution.
Therefore,
one
ask
logical
question
what
role(s)
structureless
highly
dynamic
vastly
multifunctional
IDPs/IDRs
might
This
study
represents
an
attempt
consider
various
ideas
pertaining
potential
roles
protein
intrinsic
disorder
Liquid-liquid
phase
separation
(LLPS)
and
the
solid
aggregate
(also
referred
to
as
amyloid
aggregates)
formation
of
proteins,
have
gained
significant
attention
in
recent
years
due
their
associations
with
various
physiological
pathological
processes
living
organisms.
The
systematic
investigation
differences
connections
between
proteins
undergoing
LLPS
those
forming
fibrils
at
sequence
level
has
not
yet
been
explored.
In
this
research,
we
aim
address
gap
by
comparing
two
types
across
36
features
using
collected
data
available
currently.
statistical
comparison
results
indicate
that,
24
selected
exhibit
difference
protein
groups.
A
LLPS-Fibrils
binary
classification
model
built
on
these
random
forest
reveals
that
fraction
intrinsically
disordered
residues
(F
