Frontiers in Systems Biology,
Journal Year:
2024,
Volume and Issue:
4
Published: June 7, 2024
The
COVID-19
pandemic
generated
large
amounts
of
data
on
the
disease
pathogenesis
leading
to
a
need
for
organizing
vast
knowledge
in
succinct
manner.
Between
April
2020
and
February
2023,
CIAO
consortium
exploited
Adverse
Outcome
Pathway
(AOP)
framework
comprehensively
gather
systematically
organize
published
scientific
literature
pathology.
project
considered
24
pathways
relevant
by
identifying
essential
key
events
(KEs)
19
adverse
outcomes
observed
patients.
While
an
individual
AOP
defines
causally
linked
perturbed
KEs
towards
outcome,
building
network
visually
reflect
interrelatedness
various
outcomes.
In
this
study,
17
those
AOPs
were
selected
based
quality
criteria
computationally
derive
network.
This
primary
highlighted
consider
tissue
specificity
helped
identify
missing
or
redundant
elements
which
then
manually
implemented
final
Such
enabled
visualization
complex
interactions
multifaceted
confirmed
central
role
inflammatory
response
disease.
addition,
study
disclosed
importance
terminology
harmonization
tissue/organ
building.
Furthermore
unequal
completeness
information
contained
tighter
implementation
FAIR
principles
improve
findability,
accessibility,
interoperability
re-usability.
Finally,
underlined
that
describing
specific
SARS-CoV-2
replication
discriminating
physiological
from
pathological
inflammation
is
necessary
but
requires
adaptations
framework.
Hence,
challenges
encountered,
we
proposed
recommendations
ongoing
future
AOP-aligned
consortia
aiming
build
biologically
meaningful
networks
context
of,
not
limited
to,
viral
diseases.
Microorganisms,
Journal Year:
2023,
Volume and Issue:
11(7), P. 1849 - 1849
Published: July 21, 2023
The
gut
microbiome
plays
a
critical
role
in
maintaining
overall
health
and
immune
function.
However,
dysbiosis,
an
imbalance
composition,
can
have
profound
effects
on
various
aspects
of
human
health,
including
susceptibility
to
viral
infections.
Despite
numerous
studies
investigating
the
influence
infections
microbiome,
impact
dysbiosis
infection
pathogenesis
remains
relatively
understudied.
clinical
variability
observed
SARS-CoV-2
seasonal
influenza
infections,
presence
natural
HIV
suppressors,
suggests
that
host-intrinsic
factors,
may
contribute
pathogenesis.
has
been
shown
host
system
by
regulating
intestinal
homeostasis
through
interactions
with
cells.
This
review
aims
enhance
our
understanding
how
perturb
mucosal
cells,
affecting
response
Specifically,
we
focus
exploring
between
gamma
delta
(γδ)
T
cells
microbes
context
inflammatory
examine
highlighting
disease
outcomes.
Furthermore,
discuss
emerging
evidence
potential
future
directions
for
modulation
therapy
Nutrients,
Journal Year:
2022,
Volume and Issue:
14(21), P. 4701 - 4701
Published: Nov. 7, 2022
The
prolonged
immobilization
associated
with
COVID-19
infection
and
the
restrictions
imposed
by
pandemic
have
determined
major
changes
in
physical
activity
eating
habits,
a
negative
impact
on
performance.
This
study
monitored
non-pharmacological
interventions
(diet
therapy
probiotics)
managing
sarcopenia
for
patients
recent
SARS-CoV-2
history
(14
days).
A
prospective
was
performed
200
(between
December
2020–December
2021),
SPPB
score
<
9,
randomly
divided
into:
Group
K—DP
(93
patients)
dietary
(protein
1.2–1.5
g/kg)
probiotics
two
months;
K—non-DP
(107
without
diet
probiotics.
All
were
included
specific
training
program
(40
min),
three
sessions
per
week.
Skeletal
muscle
index
(SMI),
serum
albumin,
hemoglobin
determined.
SMI
initially
low
both
groups
significant
statistical
differences
(6.5
±
0.52
kg/m2
vs.
6.7
0.57
Kg/m2
K—DP,
p
=
0.135).
After
months,
difference
between
initial
final
values
(6.92
0.50
6.77
0.56
kg/m2,
0.048).
In
at
end
of
study,
more
normal
(n
32
→
N
70)
(p
0.001)
fewer
0.001).
albumin
means
(Group
K—non-DP,
4.17
1.04
g/dL,
3.95
0.98
g/dL)
not
statistically
significantly
different
0.122).
level
improved
following
hyper
protein
enriched
pro-biotics
0.003).
Diet
therapy,
consisting
increased
intake
demonstrated
superiority
improving
functional
status
infection.
Journal of Clinical Medicine,
Journal Year:
2022,
Volume and Issue:
11(19), P. 5691 - 5691
Published: Sept. 26, 2022
The
gut
has
been
proposed
as
a
potential
alternative
entry
route
for
SARS-CoV-2.
This
was
mainly
based
on
the
high
levels
of
SARS-CoV-2
receptor
expressed
in
gastrointestinal
(GI)
tract,
observations
GI
disorders
(such
diarrhea)
some
COVID-19
patients
and
detection
RNA
feces.
However,
underlying
mechanisms
remain
poorly
understood.
It
that
can
productively
infect
enterocytes,
damaging
intestinal
barrier
contributing
to
inflammatory
response,
which
might
lead
manifestations,
including
diarrhea.
Here,
we
report
methodological
approach
assess
evidence
supporting
sequence
events
driving
enteric
infection
up
adverse
outcomes.
Exploring
permits
highlight
knowledge
gaps
current
inconsistencies
literature
guide
further
research.
Based
insights
transmission,
then
discuss
implication
clinical
practice,
long
COVID.
A
better
understanding
is
still
needed
improve
disease
management
could
help
identify
innovative
therapies
or
preventive
actions
targeting
tract.
Microorganisms,
Journal Year:
2025,
Volume and Issue:
13(3), P. 555 - 555
Published: Feb. 28, 2025
This
review
highlights
several
basic
problems
associated
with
bacterial
drug
resistance,
including
the
decreasing
efficacy
of
commercially
available
antimicrobials
as
well
related
problem
microbiome
irregularity
and
dysbiosis.
The
article
explains
that
this
present
situation
is
addressable
through
LAB
species,
such
Streptococcus
salivarius
Ligilactobacillus
salivarius,
which
are
established
synthesizers
both
broad-
narrow-spectrum
antimicrobials.
sheer
number
produced
by
species
breadth
their
biological
effects,
in
terms
bacteriostatic/bactericidal
abilities
immunomodulation,
make
them
prime
candidates
for
new
probiotics
antibiotics.
Given
ease
molecules
can
be
biochemically
engineered
fact
many
these
compounds
target
evolutionarily
constrained
sites,
it
seems
apparent
producing
organisms
ought
to
looked
at
next
generation
robust
dual
action
symbiotic
drugs.
ABSTRACT
Since
the
emergence
of
severe
acute
respiratory
syndrome
coronavirus
2
(SARS-CoV-2)
initiated
a
global
pandemic
resulting
in
an
estimated
775
million
infections
with
over
7
deaths,
it
has
become
evident
that
COVID-19
is
not
solely
pulmonary
disease.
Emerging
evidence
shown
that,
subset
patients,
certain
symptoms
−
including
chest
pain,
stroke,
anosmia,
dysgeusia,
diarrhea
and
abdominal
pain
–
all
indicate
role
vascular,
neurological
gastrointestinal
(GI)
pathology
disease
process.
Many
these
processes
persist
long
after
been
resolved,
‘long
COVID’
or
post-acute
sequelae
(PASC).
The
molecular
mechanisms
underlying
systemic
conditions
associated
remain
incompletely
defined.
Appropriate
animal
models
provide
method
understanding
at
system
level
through
study
progression,
tissue
pathology,
immune
response
to
pathogen
behavioral
responses.
However,
very
few
studies
have
addressed
PASC
whether
existing
hold
promise
for
studying
this
challenging
problem.
Here,
we
review
current
literature
on
cardiovascular,
GI
pathobiology
caused
by
along
established
manifestations
their
prospects
use
studies.
Our
aim
guidance
selection
appropriate
order
recapitulate
aspects
enhance
translatability
mechanistic
Frontiers in Cellular and Infection Microbiology,
Journal Year:
2025,
Volume and Issue:
15
Published: April 22, 2025
The
emergence
of
severe
acute
respiratory
syndrome
coronavirus
2
(SARS-CoV-2),
the
etiological
agent
disease
2019
(COVID-19),
in
late
initiated
a
global
health
crisis
marked
by
widespread
infection,
significant
mortality,
and
long-term
implications.
While
SARS-CoV-2
primarily
targets
system,
recent
findings
indicate
that
it
also
significantly
disrupts
human
microbiome,
particularly
gut
microbiota,
contributing
to
severity,
systemic
inflammation,
immune
dysregulation,
increased
susceptibility
secondary
infections
chronic
conditions.
Dysbiosis,
or
microbial
imbalance,
exacerbates
clinical
outcomes
COVID-19
has
been
linked
long-COVID,
condition
affecting
proportion
survivors
manifesting
with
over
200
symptoms
across
multiple
organ
systems.
Despite
growing
recognition
microbiome
alterations
COVID-19,
precise
mechanisms
which
interacts
influences
progression
remain
poorly
understood.
This
narrative
review
investigates
impact
on
host-microbiota
dynamics
evaluates
its
implications
severity
for
developing
personalized
therapeutic
strategies
COVID-19.
Furthermore,
highlights
dual
role
modulating
progression,
as
promising
target
advancing
diagnostic,
prognostic,
approaches
managing
Alternatives to Laboratory Animals,
Journal Year:
2023,
Volume and Issue:
51(4), P. 263 - 288
Published: June 6, 2023
Animal
experimentation
has
been
integral
to
drug
discovery
and
development
safety
assessment
for
many
years,
since
it
provides
insights
into
the
mechanisms
of
efficacy
toxicity
(e.g.
pharmacology,
pharmacokinetics
pharmacodynamics).
However,
due
species
differences
in
physiology,
metabolism
sensitivity
drugs,
animal
models
can
often
fail
replicate
effects
drugs
chemicals
human
patients,
workers
consumers.
Researchers
across
globe
are
increasingly
applying
Three
Rs
principles
by
employing
innovative
methods
research
testing.
The
concept
focuses
on:
replacement
with
vitro
silico
or
studies),
on
reduction
number
animals
required
achieve
objectives,
refinement
existing
experimental
practices
eliminating
distress
enhancing
wellbeing).
For
last
two
Oncoseek
Bio-Acasta
Health,
a
3-D
cell
culture-based
cutting-edge
translational
biotechnology
company,
organised
an
annual
International
Conference
3Rs
Research
Progress.
This
series
global
conferences
aims
bring
together
researchers
diverse
expertise
interests,
platform
where
they
share
discuss
their
promote
according
principles.
In
November
2022,
3rd
international
conference,
Advances
Models
Cutting-Edge
Alternatives,
took
place
at
GITAM
University
Vishakhapatnam
(AP,
India)
hybrid
format
(i.e.
online
in-person).
These
conference
proceedings
provide
details
presentations,
which
were
categorised
under
five
different
topic
sessions.
It
also
describes
special
interactive
session
strategies
preclinical
oncology,
was
held
end
first
day.
ALTEX,
Journal Year:
2023,
Volume and Issue:
unknown
Published: Jan. 1, 2023
The
adverse
outcome
pathways
(AOPs)
were
developed
to
accelerate
evidence-based
chemical
risk
assessment
by
leveraging
data
from
new
approach
methodologies.
Thanks
their
stressor-agnostic
approach,
AOPs
seen
as
instrumental
in
other
fields.
Here,
we
present
that
report
non-chemical
stressors
along
with
the
challenges
encountered
for
development.
Challenges
regarding
linked
nanomaterials
include
non-specific
molecular
initiating
events,
limited
understanding
of
nanomaterial
biodistribution,
and
needs
adaptations
silico
modeling
testing
systems.
Development
radiation
face
how
incorporate
ionizing
events
type,
dose
rate,
energy
deposition,
account
targeting
multiple
macromolecules.
COVID-19
required
inclusion
SARS-CoV-2-specific
replicative
steps
capture
essential
driving
disease.
Developing
evaluate
efficacy
toxicity
cell
therapies
necessitates
addressing
cellular
nature
therapeutic
function
stressor.
Finally,
emerging
biological
like
microbial
pesticides
can
learn
AOPs.
We
further
discuss
needed
expand
AOP
applicability
beyond
chemicals
are
mainly
at
levels
while
downstream
key
tissue
or
organ
level,
such
inflammation,
shared
many
initiated
various
stressors.
In
conclusion,
although
it
is
challenging
integrate
within
AOPs,
this
expands
opportunities
real-world
scenarios,
identify
vulnerable
individuals,
bridge
knowledge
on
mechanisms
adversity.
Plain
language
summaryThe
pathway
(AOP)
framework
was
help
predict
whether
have
toxic
effects
humans.
Structuring
available
information
an
accessible
database
reduce
animal
testing.
usually
path
interaction
a
stressor,
chemical,
human
body
outcome,
e.g.,
disease
symptom.
concept
has
now
been
expanded
nanomaterials,
radiation,
viruses,
cells
used
treat
patients,
microorganisms
employed
pesticides.
use
these
need
be
accommodated
point
out
share
inflammation
By
integrating
into
framework,
scenarios
where
people
may
exposed
different
stressor
types
considered,
individuals
identified,
compounded.
Diagnostics,
Journal Year:
2023,
Volume and Issue:
13(6), P. 1069 - 1069
Published: March 11, 2023
Immunothrombosis,
an
excessive
inflammatory
response
with
simultaneous
overactivation
of
the
coagulation
system,
is
a
central
pathomechanism
in
sepsis
and
COVID-19.
It
associated
cellular
activation,
vascular
damage,
microvascular
thrombosis,
which
can
lead
to
multiple
organ
failure
death.
Here,
we
characterized
factors
related
immunothrombosis
plasma
samples
from
78
patients.
In
course
routine
clinical
testing,
SARS-CoV-2
was
detected
14
these
Viral
infection
higher
mortality.
Both,
COVID-19
negative
positive
patients
showed
increased
levels
effectors
immunothrombosis,
including
platelet
factor
4,
D-dimer,
nucleosomes,
citrullinated
histone
H3,
high
mobility
group
box-1
protein,
as
well
phosphatidylserine-expressing
platelet-derived
extracellular
vesicles,
compared
healthy
controls
(n
=
25).
Using
27-plex
cytokine
bead
array,
found
that
Interleukin
(IL)-1ra,
IL-6,
IL-8,
IL-13,
tumor
necrosis
(TNF)-α,
interferon
inducible
protein
(IP)-10,
monocyte
chemotactic
(MCP)-1,
macrophage
(MIP)-1α,
granulocyte-colony
stimulating
(G-CSF)
were
elevated
both,
patients,
controls.
IP-10,
MCP-1,
while
all
other
mediators
widely
overlapped
between