Journal of Biological Chemistry,
Год журнала:
2023,
Номер
299(10), С. 105224 - 105224
Опубликована: Сен. 9, 2023
Faced
with
the
remarkable
complexity
of
cellular
signaling
networks,
human
brain
naturally
turns
to
a
reductionist
approach
that
seeks
characterize
smaller
units,
commonly
known
as
pathways,
and
their
individual
components.
This
has
proven
essential
for
understanding
pleiotropic
physiological
processes
attributed
PI3K
well
consequences
disease-causing
aberrations
in
pathway
biochemical
molecular
discovery
resulted
identification
multiple
different
catalytic
regulatory
isoforms
PI3K,
biosynthetic
routes
key
lipid
products
second
messengers
PIP3
PI(3,4)P2,
effectors
such
AKT
downstream
substrates.
Cell,
Год журнала:
2024,
Номер
187(14), С. 3461 - 3495
Опубликована: Июнь 20, 2024
Developmental
biology-the
study
of
the
processes
by
which
cells,
tissues,
and
organisms
develop
change
over
time-has
entered
a
new
golden
age.
After
molecular
genetics
revolution
in
80s
90s
diversification
field
early
21st
century,
we
have
phase
when
powerful
technologies
provide
approaches
open
unexplored
avenues.
Progress
has
been
accelerated
advances
genomics,
imaging,
engineering,
computational
biology
emerging
model
systems
ranging
from
tardigrades
to
organoids.
We
summarize
how
revolutionary
led
remarkable
progress
understanding
animal
development.
describe
classic
questions
gene
regulation,
pattern
formation,
morphogenesis,
organogenesis,
stem
cell
are
being
revisited.
discuss
connections
development
with
evolution,
self-organization,
metabolism,
time,
ecology.
speculate
developmental
might
evolve
an
era
synthetic
biology,
artificial
intelligence,
human
engineering.
Decades
ago,
mitogen-promoted
signaling
duration
and
strength
were
observed
to
be
sensed
by
the
cell
critical
for
its
decisions:
proliferate
or
differentiate.
Landmark
publications
established
importance
of
mitogen
not
only
in
G
1
cycle
phase
but
also
through
S
2
/M
transition.
Despite
these
early
milestones,
how
signal
strength,
short
strong
weaker
sustained,
control
fate
has
been
largely
unheeded.
Here,
we
center
on
cardinal
signaling-related
questions,
including
(i)
fluctuating
mitogenic
signals
are
converted
into
proliferation-differentiation
decisions
(ii)
why
extended
weak
is
associated
with
differentiation,
while
bursts
induce
proliferation
but,
if
too
long,
irreversible
senescence.
Our
innovative
broad
outlook
harnesses
biology
protein
conformational
ensembles,
helping
us
define
clarify
decisions,
thus
fate.
Trends in Cell Biology,
Год журнала:
2025,
Номер
unknown
Опубликована: Янв. 1, 2025
Lipids
are
major
cell
constituents
endowed
with
astonishing
structural
diversity.
The
pathways
responsible
for
the
assembly
and
disposal
of
different
lipid
species
energetically
demanding,
genes
encoding
metabolic
factors
lipid-related
proteins
comprise
a
sizable
fraction
our
coding
genome.
Despite
importance
lipids,
biological
significance
diversity
remains
largely
obscure.
Recent
technological
developments
have
enabled
extensive
analysis
at
single
level,
revealing
unexpected
cell-cell
variability
in
composition.
This
new
evidence
suggests
that
is
exploited
multicellularity
lipids
role
establishment
maintenance
identity.
In
this
review,
we
highlight
emerging
concepts
technologies
implications
research
future
studies.
Journal of the American Chemical Society,
Год журнала:
2025,
Номер
unknown
Опубликована: Фев. 5, 2025
Inspired
by
naturally
occurring
protein
dimerization
networks,
in
which
a
set
of
proteins
interact
with
each
other
to
achieve
highly
complex
input-output
behaviors,
we
demonstrate
here
fully
synthetic
DNA-based
network
that
enables
programmable
computations.
Our
consists
DNA
oligonucleotide
monomers
modified
reactive
moieties
can
covalently
bond
form
dimer
outputs
an
all-to-all
or
many-to-many
fashion.
By
designing
input
strands
specifically
sequester
monomers,
control
the
size
reaction
and
thus
fine-tune
yield
output
predictable
manner.
Thanks
programmability
specificity
DNA–DNA
interactions,
show
this
approach
be
used
different
using
inputs.
The
is
also
versatile
networks
based
on
two
distinct
covalent
reactions:
thiol–disulfide
strain-promoted
azide–alkyne
cycloaddition
(SPAAC)
reactions.
Finally,
functional
output,
ultimately
controlling
assembly
disassembly
nanostructures.
dynamic
shown
provide
way
convert
multiple
inputs
into
broader
range
functions,
including
ones
mimic
those
living
cells.
Cell Reports,
Год журнала:
2023,
Номер
42(4), С. 112401 - 112401
Опубликована: Апрель 1, 2023
Cell-to-cell
heterogeneity
is
vital
for
tumor
evolution
and
survival.
How
cancer
cells
achieve
exploit
this
remains
an
active
area
of
research.
Here,
we
identify
c-Myc
as
a
highly
heterogeneously
expressed
transcription
factor
orchestrator
transcriptional
phenotypic
diversity
in
cells.
By
monitoring
endogenous
protein
individual
living
cells,
report
the
surprising
pulsatile
nature
expression
extensive
cell-to-cell
variability
its
dynamics.
We
further
show
that
dynamics
leads
to
variable
target
gene
timing
predicts
cell-cycle
progression
rates
drug
sensitivities.
Together,
our
data
advocate
model
which
increase
functionally
diverse
factors
such
rapidly
survey
landscapes
survive
stress.
Biochemical Journal,
Год журнала:
2023,
Номер
480(23), С. 1887 - 1907
Опубликована: Дек. 1, 2023
Extracellular
signal-regulated
kinase
(ERK)
has
long
been
studied
as
a
key
driver
of
both
essential
cellular
processes
and
disease.
A
persistent
question
how
this
single
pathway
is
able
to
direct
multiple
cell
behaviors,
including
growth,
proliferation,
death.
Modern
biosensor
studies
have
revealed
that
the
temporal
pattern
ERK
activity
highly
variable
heterogeneous,
critically,
these
dynamic
differences
modulate
fate.
This
two-part
review
discusses
current
understanding
in
pathway,
it
regulates
decisions,
fates
lead
tissue
regulation
pathology.
In
part
1,
we
cover
optogenetic
live-cell
imaging
technologies
first
nature
ERK,
well
challenges
data
analysis.
We
also
discuss
advances
mathematical
models
for
mechanisms
dynamics,
receptor-level
regulation,
negative
feedback,
cooperativity,
paracrine
signaling.
While
hurdles
still
remain,
clear
higher
spatial
resolution
provide
mechanistic
insights
into
circuitry.
Exciting
new
algorithms
advanced
computational
tools
enable
quantitative
measurements
single-cell
activation,
which
turn
inform
better
behavior.
However,
fact
cannot
fully
recapitulate
diversity
responses
calls
deeper
network
structure
signal
transduction
general.
