Protein interaction networks in neurodegenerative diseases: From physiological function to aggregation
Journal of Biological Chemistry,
Год журнала:
2022,
Номер
298(7), С. 102062 - 102062
Опубликована: Май 25, 2022
The
accumulation
of
protein
inclusions
is
linked
to
many
neurodegenerative
diseases
that
typically
develop
in
older
individuals,
due
a
combination
genetic
and
environmental
factors.
In
rare
familial
disorders,
genes
encoding
for
aggregation-prone
proteins
are
often
mutated.
While
the
underlying
mechanism
leading
these
still
remains
be
fully
elucidated,
efforts
past
20
years
revealed
vast
network
protein–protein
interactions
play
major
role
regulating
aggregation
key
associated
with
neurodegeneration.
Misfolded
can
oligomerize
form
insoluble
aggregates
associate
molecular
chaperones
other
elements
proteolytic
machineries
frontline
workers
attempting
protect
cells
by
promoting
clearance
preventing
aggregation.
Proteins
normally
bound
become
sequestered
mislocalized
inclusions,
their
loss
function.
contrast,
mutations,
posttranslational
modifications,
or
misfolding
lead
gain
function
inducing
novel
altered
interactions,
which
turn
impact
numerous
essential
cellular
processes
organelles,
such
as
vesicle
trafficking
mitochondria.
This
review
examines
our
current
knowledge
involving
several
Alzheimer's
disease,
Parkinson's
Huntington's
amyotrophic
lateral
sclerosis.
We
aim
provide
an
overview
interaction
networks
central
driving
mitigating
inclusion
formation,
while
highlighting
some
proteomic
studies
helped
uncover
extent
networks.
Neurodegenerative
(NDs)
complex
multifactorial
pathology,
result
progressive
damage
neuronal
connectivity,
ultimately
impaired
mobility
and/or
cognition.
Protein
oligomerization
gives
rise
extracellular
intracellular
common
hallmark
NDs.
Further
spreading
amyloid
nervous
system–similar
prion-based
infections,
hence
referred
prion-like
mechanism–is
thought
element
etiology
NDs
(1Goedert
M.
NEURODEGENERATION.
diseases:
prion
concept
relation
assembled
Abeta,
tau,
alpha-synuclein.Science.
2015;
349:
1255555Crossref
PubMed
Scopus
(552)
Google
Scholar).
few
decades,
biochemical
causes
were
uncovered,
distinction
between
rarer
forms,
where
disease-causing
mutations
genetically
inherited,
more
sporadic
risk
factors
drive
pathogenesis
(2Bertram
L.
Tanzi
R.E.
epidemiology
disease.J.
Clin.
Invest.
2005;
115:
1449-1457Crossref
(444)
both
cases,
affected
found
enriched
pathological
aggregates,
highlights
importance
manifestation
disease.
However,
despite
accumulated
clinical
trials
attempts
made
alleviate
aggregation,
date
no
therapeutic
strategy
has
been
broadly
accepted
cure
any
led
scientists
question
whether
really
ND
mere
(3Walsh
D.M.
Selkoe
D.J.
A
critical
appraisal
pathogenic
spread
hypothesis
neurodegeneration.Nat.
Rev.
Neurosci.
2016;
17:
251-260Crossref
(189)
Scholar,
4Makin
S.
on
trial.Nature.
2018;
559:
S4-S7Crossref
Nonetheless,
collectively,
work
decades
generated
understanding
how
each
engages
pathways.
this
review,
we
intricate
connections
bringing
together
core
findings
recent
discoveries.For
ND,
different
sets
mutated
brain
regions
cell
types
initially
affected.
For
example,
disease
(HD)
spinocerebellar
ataxia
type
1
(SCA1)
expansion
CAG
repeat
huntingtin
(HTT)
ataxin
(ATXN1)
genes,
respectively,
resulting
unusually
long
polyglutamine
(polyQ)
tract
very
prone
deposits
striatal
neurons
(5Ross
C.A.
Tabrizi
S.J.
disease:
from
treatment.Lancet
Neurol.
2011;
10:
83-98Abstract
Full
Text
PDF
(1062)
6Orr
H.T.
Zoghbi
H.Y.
SCA1
genetics:
history
13
year
collaboration
against
glutamines.Hum.
Mol.
Genet.
2001;
2307-2311Crossref
(AD),
two
observed.
aberrant
cleavage
products
transmembrane
amyloid-β
(Aβ)
precursor
(APP)
plaque
temporal
parietal
regions,
tau
(MAPT)
accumulates
intracellularly,
neurofibrillary
tangles
(7Selkoe
Hardy
J.
at
25
years.EMBO
Med.
8:
595-608Crossref
(2881)
Parkinsonś
(PD),
primarily
area
substantia
nigra
(SN),
α-synuclein
(α-syn;
SNCA)
accumulate
dopaminergic
(8Poewe
W.
Seppi
K.
Tanner
C.M.
Halliday
G.M.
Brundin
P.
Volkmann
et
al.Parkinson
disease.Nat.
Dis.
Primers.
2017;
3:
17013Crossref
(1086)
ALS,
superoxide
dismutase
(SOD1),
RNA-binding
FUS
(FUsed
Sarcoma),
TAR-DNA–binding
43
(TDP-43)
have
identified
motor
primary
cortex,
brainstem,
spinal
cord
(9Foerster
B.R.
Welsh
R.C.
Feldman
E.L.
neuroimaging
sclerosis.Nat.
2013;
9:
513-524Crossref
(49)
It
therefore
important
consider
independently
context
most
Note,
will
mostly
use
short
names
whenever
gene
corresponding
italicized
name
also
indicated
brackets
if
it
name.Protein
disease-associated
facilitated
posttranslation
modifications
(e.g.,
phosphorylation
cleavage)
avert
formation
native
structure,
cases
seemingly
occur
sporadically,
without
yet
clear
explanation.
Aggregation
first
initiated
seed
or/and
oligomer,
sequence-specific
misfolded
interact
adopt
non-native
conformation,
then
convert
into
toxic
form.
leads
fibrils
distinctive
β-sheet
structure
arise
when
soluble
oligomers
begin
assemble
small
protofibrils
(10Iadanza
M.G.
Jackson
M.P.
Hewitt
E.W.
Ranson
N.A.
Radford
S.E.
new
era
structures
Cell
Biol.
19:
755-773Crossref
(0)
When
converted
longer
larger
visible
light
microscopy.
Recently,
proposed
may
favored
liquid–liquid
phase
separation
(11Mathieu
C.
Pappu
R.V.
Taylor
J.P.
Beyond
aggregation:
transitions
disease.Science.
2020;
370:
56-60Crossref
(78)
Scholar)
(Box
1).
Moreover,
now
evident
there
polymorphs
vitro
vivo
(polymorph
term
used
indicate
capacity
polypeptide
generate
structures)
(12Petkova
A.T.
Leapman
R.D.
Guo
Z.
Yau
W.M.
Mattson
Tycko
R.
Self-propagating,
molecular-level
polymorphism
beta-amyloid
fibrils.Science.
307:
262-265Crossref
(1401)
13Fitzpatrick
A.W.P.
Falcon
B.
He
Murzin
A.G.
Murshudov
G.
Garringer
H.J.
al.Cryo-EM
filaments
disease.Nature.
547:
185-190Crossref
(932)
Scholar).Box
1Liquid–liquid
separationConventional
mechanisms
disease-related
proceed
through
oligomerization.
increasing
attention
given
(LLPS)
process.
Phase-separated
droplets
concentrated
environment
process
accelerated.
LLPS
occurs
molecules
solution
stronger
than
entropic
cost
demixing
overcome
condensed
formed
(393Banani
S.F.
Lee
H.O.
Hyman
A.A.
Rosen
M.K.
Biomolecular
condensates:
organizers
biochemistry.Nat.
18:
285-298Crossref
(1864)
Beginning
P
granules,
membraneless
organelles
(MLOs)
shown
exhibit
liquid-like
properties
exchanging
components
surrounding
environment,
deforming
under
sheer
force
fusing
(394Brangwynne
C.P.
Eckmann
C.R.
Courson
D.S.
Rybarska
A.
Hoege
Gharakhani
al.Germline
granules
liquid
localize
controlled
dissolution/condensation.Science.
2009;
324:
1729-1732Crossref
(1339)
395Weber
S.C.
Brangwynne
Inverse
size
scaling
nucleolus
concentration-dependent
transition.Curr.
25:
641-646Abstract
(168)
396Wippich
F.
Bodenmiller
Trajkovska
Wanka
Aebersold
Pelkmans
Dual
specificity
kinase
DYRK3
couples
stress
granule
condensation/dissolution
mTORC1
signaling.Cell.
152:
791-805Abstract
(351)
MLOs
LLPS.
crucial
processes,
changes
phase-separated
ability
separate
emerging
property
proteins.
Over
time,
separated
mature
solid,
glass-like
states
(397Shin
Y.
Berry
Pannucci
N.
Haataja
Toettcher
J.E.
Spatiotemporal
control
using
light-activated
optoDroplets.Cell.
168:
159-171.e114Abstract
(356)
vitrified
state
consists
thioflavin-positive
discussed
here.
Phase
presence
polyanionic
T-cell
antigen
(TIA1)
(398Ambadipudi
Biernat
Riedel
D.
Mandelkow
E.
Zweckstetter
Liquid-liquid
microtubule-binding
repeats
Alzheimer-related
Tau.Nat.
Commun.
275Crossref
(309)
399Ash
P.E.A.
Lei
Shattuck
Boudeau
Carlomagno
Medalla
al.TIA1
potentiates
promotes
generation
oligomeric
tau.Proc.
Natl.
Acad.
Sci.
U.
2021;
118e2014188118Crossref
(22)
Phosphorylation
promote
its
accelerate
conversion
solid
eventually
forming
thioflavin-T–positive
400Wegmann
Eftekharzadeh
Tepper
Zoltowska
K.M.
Bennett
Dujardin
al.Tau
liquid-liquid
initiate
aggregation.EMBO
37e98049Crossref
(369)
401Boyko
Surewicz
W.K.
Regulatory
fibrillation
conditions
separation.Proc.
117:
31882-31890Crossref
(27)
phase-separation
α-syn
requires
nonphysiological
periods
time
(402Sawner
A.S.
Ray
Yadav
Mukherjee
Panigrahi
Poudyal
al.Modulating
alpha-synuclein
separation.Biochemistry.
60:
3676-3696Crossref
(7)
localizes
negatively
charged
C-terminal
domain
positively
proline-rich
region
(403Siegert
Rankovic
Favretto
Ukmar-Godec
T.
Strohaker
Becker
al.Interplay
separation.Protein
30:
1326-1336Crossref
(11)
link
neurodegeneration
particularly
case
implicated.
MLOs,
structural
intrinsically
disorder
(IDRs)
granules.
IDRs
RNA
influence
morphology
dynamics
protein–RNA
(404Boeynaems
Holehouse
Weinhardt
V.
Kovacs
Van
Lindt
Larabell
al.Spontaneous
forces
give
protein-RNA
condensates
coexisting
phases
material
properties.Proc.
2019;
116:
7889-7898Crossref
(174)
ALS-associated
low-complexity
domains
FUS,
TIA1,
heterogeneous
nuclear
ribonucleoprotein
A1
(hnRNPA1),
TDP-43
transition
(405Murakami
Qamar
Lin
J.Q.
Schierle
G.S.
Rees
Miyashita
al.ALS/FTD
mutation-induced
reversible
hydrogels
irreversible
impairs
RNP
function.Neuron.
88:
678-690Abstract
(465)
406Patel
Jawerth
Maharana
Jahnel
Hein
M.Y.
al.A
liquid-to-solid
ALS
accelerated
mutation.Cell.
162:
1066-1077Abstract
(1272)
407Lin
Protter
Parker
maturation
proteins.Mol.
Cell.
208-219Abstract
(835)
408Molliex
Temirov
Coughlin
Kanagaraj
A.P.
Kim
al.Phase
low
complexity
assembly
drives
fibrillization.Cell.
163:
123-133Abstract
(1219)
409Conicella
A.E.
Zerze
G.H.
Mittal
Fawzi
N.L.
disrupt
mediated
alpha-helical
domain.Structure.
24:
1537-1549Abstract
(382)
410Mackenzie
I.R.
Nicholson
A.M.
Sarkar
Messing
Purice
M.D.
Pottier
sclerosis
frontotemporal
dementia
alter
dynamics.Neuron.
95:
808-816.e809Abstract
(328)
These
pathology
disrupting
functions
trapping
translational
machinery
Low-complexity
characteristic
HTT
separates
weak
hydrophobic
polyQ
(411Peskett
T.R.
Rau
O'Driscoll
Patani
Lowe
A.R.
Saibil
H.R.
Exon1
aggregation.Mol.
70:
588-601.e586Abstract
(130)
412Aktar
Burudpakdee
Polanco
Pei
Swayne
T.C.
Lipke
P.N.
al.The
dynamic
compartment.Life
Alli.
2e201900489PubMed
With
length,
quickly
lower
concentration.
structures.
Interestingly,
profilin
interacts
reduces
separate,
well
reduced
rate
fibril
(413Posey
Ruff
Harmon
T.S.
Crick
S.L.
Li
Diamond
M.I.
al.Profilin
N-terminal
fragments
preferentially
binding
monomers
oligomers.J.
Chem.
293:
3734-3746Abstract
(61)
PPIs
behavior
intertwined
potentially
neurodegeneration.Protein
cause
series
deleterious
events
cell.
First,
aggregated
affect
(PPIs)
natively
folded
protein.
interacting
coaggregate.
later,
main
known
briefly
discuss
physiological
relevance.
underline
disease-specific
PPIs,
especially
aggregation.In
addition,
species
mediate
engage
would
not
(14Schaefer
M.H.
Wanker
E.E.
Andrade-Navarro
M.A.
Evolution
CAG/polyglutamine
protein-protein
networks.Nucl.
Acids
Res.
2012;
40:
4273-4287Crossref
Notably,
acute
chronic
exposure
unraveling
buried,
hydrophobic,
even
unrelated
proteins,
thereby
coaggregation
polypeptides
(15Olzscha
H.
Schermann
S.M.
Woerner
A.C.
Pinkert
Hecht
Tartaglia
G.G.
al.Amyloid-like
sequester
metastable
functions.Cell.
144:
67-78Abstract
(496)
gained
perturb
normal
instance,
all
reviewed
form,
mitochondrial
disrupted
perturbations
detail
chapter
centrality
ND.
addition
interfering
membranes,
exacerbate
cytotoxicity
16Kayed
Head
Thompson
J.L.
McIntire
T.M.
Milton
Cotman
C.W.
al.Common
implies
pathogenesis.Science.
2003;
300:
486-489Crossref
(3379)
As
aggregating
arranged
polymorphs,
differentially,
depending
propagate
components.
dictate
conformation
favored,
could
(17Peng
Gathagan
R.J.
Covell
Medellin
Stieber
Robinson
al.Cellular
milieu
imparts
distinct
strains
alpha-synucleinopathies.Nature.
557:
558-563Crossref
(288)
Scholar).To
deal
challenges
posed
human
developed
coping
largely
rely
homeostasis
network.
Molecular
maintain
(a.k.a.
proteostasis)
facilitating
folding
disaggregation,
targeting
degradation
(18Klaips
C.L.
Jayaraj
Hartl
F.U.
Pathways
proteostasis
aging
217:
51-63Crossref
(337)
Different
pathways
eliminate
directing
them
either
ubiquitin–proteasome
lysosomal
system.
Furthermore,
displays
protective
noncytotoxic,
less
toxic,
lowering
smaller
via
sequestration
(19Lansbury
P.T.
Lashuel
H.A.
century-old
debate
enters
clinic.Nature.
2006;
443:
774-779Crossref
Nevertheless,
described
previously
extend
quality
itself.
effects
reducing
pool
available
functions,
impairing
proteasome
exacerbating
(20Keck
Nitsch
Grune
Ullrich
O.
Proteasome
inhibition
paired
helical
filament-tau
brains
patients
Neurochem.
85:
115-122Crossref
21Guo
Q.
Lehmer
Martinez-Sanchez
Rudack
Beck
Hartmann
al.In
Situ
C9orf72
poly-GA
reveals
recruitment.Cell.
172:
696-705.e612Abstract
(201)
Understanding
during
progression
reveal
strategies
treatment
NDs.The
functional
characterization
so
far
proven
challenge.
elucidated.
contributing
modifiers
ND-causing
poorly
understood.
Few
systematically
analyzed
similarities
causing
Therefore,
decided
work,
interrogating
PPI
(PINs)
around
carefully
examining
mitochondria,
order
general
view
determine
commonalities
diseases.Building
networksIdentification
was
guided
initial
immunochemistry.
elucidation
targeted
approaches—customarily
assessing
coimmunoprecipitation—still
represents
large
portion
related
unbiased
searches
better
partners
driven
yeast
two-hybrid
(Y2H)
method,
technique
emerged
over
ago.
Advances
identification
methodologies
2
including
improvement
mass
spectrometry
instrumentation,
further
unraveled
PINs,
providing
additional
insights
involved
Major
contributions
PINs
come
proteomics
coimmunoprecipitation
experiments,
commonly
affinity
purification
(AP-MS)
2),
proximity-labeling
approaches
3)
becoming
increasingly
popular.Box
2Affinity
spectrometryAffinity
refers
enrichment
isolation
particular
(i.e.,
bait)
prey)
method
(414Gingras
Gstaiger
Raught
Analysis
complexes
spectrometry.Nat.
2007;
645-654Crossref
(540)
415Smits
A.H.
Vermeulen
Characterizing
spectrometry:
opportunities.Trends
Biotechnol.
34:
825-834Abstract
done
exogenous
expression
bait
fused
tag
immunoprecipitation
endogenous
specific
antibody.
Antibodies
immobilized
resins
magnetic
agarose
beads
exposed
lysates
followed
retrieval
washing,
prior
elution
digestion
coimmunoprecipitated
shotgun
proteomics.
Exogenous
epitope
FLAG
HA
advantage
requiring
antibody
approach
applied
multiple
tagged
baits
allow
nonspecific
overexpression
false
identifications
levels
itself
Isotopic
antibodies
transfection
alone
negative
controls.
Initial
decrease
background
focused
dual
scheme
(416Gavin
Bosche
Krause
Grandi
Marzioch
Bauer
al.Functional
organization
proteome
systematic
analysis
prot
Язык: Английский
Therapeutic reversal of Huntington’s disease by in vivo self-assembled siRNAs
Li Zhang,
Tengteng Wu,
Yangyang Shan
и другие.
Brain,
Год журнала:
2021,
Номер
144(11), С. 3421 - 3435
Опубликована: Сен. 23, 2021
Abstract
Huntington’s
disease
is
an
autosomal-dominant
neurodegenerative
caused
by
CAG
expansion
in
exon
1
of
the
huntingtin
(HTT)
gene.
Since
mutant
(mHTT)
protein
root
cause
disease,
oligonucleotide-based
therapeutic
approaches
using
small
interfering
RNAs
(siRNAs)
and
antisense
oligonucleotides
designed
to
specifically
silence
mHTT
may
be
novel
strategies
for
disease.
Unfortunately,
lack
effective
vivo
delivery
system
remains
a
major
obstacle
realizing
full
potential
oligonucleotide
therapeutics,
especially
regarding
cortex
striatum,
most
severely
affected
brain
regions
In
this
study,
we
present
synthetic
biology
strategy
that
integrates
naturally
existing
exosome-circulating
with
artificial
genetic
circuits
self-assembly
mHTT-silencing
siRNA
striatum.
We
cytomegalovirus
promoter-directed
circuit
encoding
both
neuron-targeting
rabies
virus
glycoprotein
tag
siRNA.
After
being
taken
up
mouse
livers
after
intravenous
injection,
was
able
reprogramme
hepatocytes
transcribe
self-assemble
into
glycoprotein-tagged
exosomes.
The
further
delivered
through
guided
Consequently,
three
models
treated
circuit,
levels
toxic
aggregates
were
successfully
reduced
therefore
ameliorating
behavioural
deficits
striatal
cortical
neuropathologies.
Overall,
our
findings
establish
convenient,
safe
siRNAs
provide
significant
benefit
Язык: Английский
TGF-β as a Key Modulator of Astrocyte Reactivity: Disease Relevance and Therapeutic Implications
Biomedicines,
Год журнала:
2022,
Номер
10(5), С. 1206 - 1206
Опубликована: Май 23, 2022
Astrocytes
are
essential
for
normal
brain
development
and
functioning.
They
respond
to
injury
disease
through
a
process
referred
as
reactive
astrogliosis,
where
the
reactivity
is
highly
heterogenous
context-dependent.
Reactive
astrocytes
active
contributors
pathology
can
exert
beneficial,
detrimental,
or
mixed
effects
following
insults.
Transforming
growth
factor-β
(TGF-β)
has
been
identified
one
of
key
factors
regulating
astrocyte
reactivity.
The
genetic
pharmacological
manipulation
TGF-β
signaling
pathway
in
animal
models
central
nervous
system
(CNS)
alters
pathological
functional
outcomes.
This
review
aims
provide
recent
understanding
regarding
injury,
aging,
neurodegeneration.
Further,
it
explores
how
modulates
function
context
CNS
injury.
Язык: Английский
Neuroinflammation in Huntington’s Disease: A Starring Role for Astrocyte and Microglia
Current Neuropharmacology,
Год журнала:
2021,
Номер
20(6), С. 1116 - 1143
Опубликована: Дек. 2, 2021
Huntington's
disease
(HD)
is
a
neurodegenerative
genetic
disorder
caused
by
CAG
repeat
expansion
in
the
huntingtin
gene.
HD
causes
motor,
cognitive,
and
behavioral
dysfunction.
Since
no
existing
treatment
affects
course
of
this
disease,
new
treatments
are
needed.
Inflammation
frequently
observed
patients
before
symptom
onset.
Neuroinflammation,
characterized
presence
reactive
microglia,
astrocytes
inflammatory
factors
within
brain,
also
detected
early.
However,
comparison
to
other
diseases,
role
neuroinflammation
much
less
known.
Work
has
been
dedicated
altered
microglial
astrocytic
functions
context
HD,
but
attention
given
glial
participation
neuroinflammation.
This
review
describes
evidence
inflammation
animal
models.
It
discusses
recent
knowledge
on
highlighting
astrocyte
microglia
involvement
considering
anti-inflammatory
therapeutic
approaches.
Язык: Английский
FAN1 controls mismatch repair complex assembly via MLH1 retention to stabilize CAG repeat expansion in Huntington’s disease
Cell Reports,
Год журнала:
2021,
Номер
36(9), С. 109649 - 109649
Опубликована: Авг. 1, 2021
CAG
repeat
expansion
in
the
HTT
gene
drives
Huntington's
disease
(HD)
pathogenesis
and
is
modulated
by
DNA
damage
repair
pathways.
In
this
context,
interaction
between
FAN1,
a
DNA-structure-specific
nuclease,
MLH1,
member
of
mismatch
pathway
(MMR),
not
defined.
Here,
we
identify
highly
conserved
SPYF
motif
at
N
terminus
FAN1
that
binds
to
MLH1.
Our
data
support
model
where
has
two
distinct
functions
stabilize
repeats.
On
one
hand,
it
MLH1
restrict
its
recruitment
MSH3,
thus
inhibiting
assembly
functional
MMR
complex
would
otherwise
promote
expansion.
other
promotes
accurate
via
nuclease
activity.
These
highlight
potential
avenue
for
HD
therapeutics
attenuating
somatic
Язык: Английский