Computational and Structural Biotechnology Journal,
Journal Year:
2025,
Volume and Issue:
27, P. 1482 - 1497
Published: Jan. 1, 2025
Functional
redundancy
has
been
hypothesised
to
be
at
the
core
of
well-evidenced
relation
between
high
ecological
microbiome
diversity
and
human
health.
Here,
we
conceptualise
operationalise
functional
on
a
single-trait
level
for
functionally
annotated
microbial
communities,
utilising
an
information-theoretic
approach
based
relative
entropy
that
also
allows
quantification
interdependency
across
species.
Via
constraint-based
community
modelling
public
faecal
metagenomic
dataset,
demonstrate
strength
species
is
dependent
specific
attributes
function
under
consideration
such
as
rarity
occurring
interdependencies.
Moreover,
by
integrating
metabolome
data,
highlight
measures
have
correlates
in
host's
metabolome.
We
further
microbiomes
sampled
from
colorectal
cancer
patients
display
higher
levels
species-species
interdependencies
than
those
healthy
controls.
By
analysing
models
inflammatory
bowel
disease
(IBD)
study,
show
although
decreased
IBD
subjects,
increased
certain
metabolites,
notably
hydrogen
sulphide.
This
finding
highlights
their
potential
provide
valuable
insights
beyond
diversity.
formalise
concept
communities
its
usefulness
real
providing
foundation
deeper
understanding
how
shapes
capacities
microbiome.
Microorganisms,
Journal Year:
2025,
Volume and Issue:
13(4), P. 916 - 916
Published: April 16, 2025
Members
of
Eubacteriaceae
are
involved
in
host
health
and
diseases.
Two
Gram-stain-positive,
strictly
anaerobic,
non-motile,
non-spore-forming,
rod-shaped
bacterial
strains,
HA2171T
HA2172T,
were
isolated
from
the
feces
Chinese
healthy
donors.
Based
on
16S
rRNA
gene
sequences,
HA2172T
belonged
to
family
Eubacteriaceae.
Physiological
biochemical
characterizations
indicated
that
neutrophilic,
mesophilic,
tolerant
low-concentration
NaCl.
The
major
cellular
fatty
acids
(>10.0%)
C16:0,
C14:0,
C18:1ω7c,
C17:0
2-OH,
those
C14:0
C16:0.
MK-6
was
respiratory
quinone
both
strains.
Phylogenetic
phylogenomic
analyses
showed
closest
Anaerofustis
stercorihominis
ATCC
BAA-858T
as
Pseudoramibacter
alactolyticus
23263T.
Genome
annotation
revealed
able
metabolize
carbohydrates
produce
acetate
butyrate.
contains
genes
associated
with
hydrogen
sulfide
production,
which
is
a
potential
risk
for
phylogenetic,
phenotypic,
chemotaxonomic
characteristics,
we
propose
represent
two
novel
species,
names
butyriciformans
sp.
nov.
faecis
proposed.
Microbiology Spectrum,
Journal Year:
2025,
Volume and Issue:
unknown
Published: April 24, 2025
ABSTRACT
Systemic
sclerosis
(SSc)
is
an
autoimmune
disease
with
progressive
fibrotic
disorders
in
multiple
organs.
Mesenchymal
stem
cells
(MSCs)
have
shown
great
potential
treating
SSc,
but
the
exact
regulatory
mechanism
not
fully
understood.
In
this
study,
we
used
human
umbilical
cord-derived
MSCs
(hUC-MSCs)
to
treat
SSc
mice
induced
by
bleomycin.
The
gut
microbiota
composition
and
predicted
functions
were
analyzed
using
2bRAD
sequencing
of
fecal
samples
from
control,
MSCs-treated
mice.
Treatment
improved
bleomycin-induced
mice,
characterized
significantly
reduced
collagen
deposition
dermal
thickness.
exhibited
lower
species
evenness
was
clearly
separated
control
based
on
beta
diversity.
MSC
treatment
led
a
significant
reduction
conditionally
pathogenic
bacteria
enriched
including
Akkermansia
muciniphila
Parasutterella
excrementihominis
.
Conversely,
relative
abundance
butyrate-producing
bacteria,
such
as
Roseburia
,
Butyricicoccus
porcorum
Gemmiger
formicilis
notably
increased
Additionally,
functional
analysis
revealed
that
intervention
effectively
enhanced
sulfur
metabolism,
tryptophan
citrate
cycle,
RNA
polymerase,
beta-lactam
resistance.
summary,
findings
present
study
suggested
close
association
between
metabolic
dysbiosis
SSc.
administration
has
been
regulate
disrupted
pathways
thus
restoring
normal
function
microbiota.
This
provides
valuable
insights
into
specific
involved
efficacy
treatment,
thereby
proposing
novel
therapeutic
strategy
for
IMPORTANCE
Human
mesenchymal
(HUC‑MSCs)
demonstrate
alleviating
skin
thickening
systemic
which
also
function.
Specifically,
leads
notable
increase
decrease
reversal
dysregulated
microbial
These
underscore
significance
effects
Engineered Regeneration,
Journal Year:
2024,
Volume and Issue:
5(2), P. 228 - 246
Published: April 17, 2024
The
gut
has
been
a
focal
point
in
the
research
of
digestive
system
disorders.
internal
microbiota
generates
metabolites
that
function
as
signaling
molecules
and
substrates,
interacting
with
intestinal
wall
influencing
host
physiology
pathology.
Besides,
owe
highly
diverse
types
quantities,
posing
challenges
for
quantitative
analysis,
monitoring
frequent
interactions
between
tract
remains
challenge.
However,
targeting
elucidated
their
relevance
to
diseases.
By
modulating
such
short-chain
fatty
acids,
bile
lipopolysaccharides,
it
is
possible
intervene
progression
diseases
inflammatory
bowel
disease
non-alcoholic
liver
disease.
Currently,
on
advancing,
more
work
required
explore
host,
microbes
underlying
mechanisms.
In
this
review,
we
have
revisited
generation
microbiota-related
metabolites,
impact
diseases,
modes
interaction,
emphasizing
significant
role
It
believed
linkage
current
can
be
established
through
providing
framework
foundation
field
metabolomics
fundamental
Journal of Pharmaceutical Analysis,
Journal Year:
2024,
Volume and Issue:
unknown, P. 101074 - 101074
Published: Aug. 1, 2024
Inflammatory
bowel
disease
(IBD)
is
a
chronic
and
recurrent
intestinal
disease,
has
become
major
global
health
issue.
Individuals
with
IBD
face
an
elevated
risk
of
developing
colorectal
cancer
(CRC),
recent
studies
have
indicated
that
mitochondrial
dysfunction
plays
pivotal
role
in
the
pathogenesis
both
CRC.
This
review
covers
CRC,
focusing
on
dysfunction,
explores
pharmacological
targets
strategies
for
addressing
conditions
by
modulating
function.
Additionally,
advancements
modulation
treating
encompassing
damage,
release
DNA
(mtDNA),
impairment
mitophagy,
are
thoroughly
summarized.
The
also
provides
systematic
overview
natural
compounds
(such
as
flavonoids,
alkaloids,
diterpenoids),
Chinese
medicines,
microbiota,
which
can
alleviate
attenuate
progression
CRC
In
future,
it
will
be
imperative
to
develop
more
practical
methodologies
real-time
monitoring
accurate
detection
function,
greatly
aid
scientists
identifying
effective
agents
through
Pharmacological Reviews,
Journal Year:
2024,
Volume and Issue:
76(5), P. 846 - 895
Published: June 12, 2024
Cardiometabolic
diseases
(CMDs)
are
major
contributors
to
global
mortality,
emphasizing
the
critical
need
for
novel
therapeutic
interventions.
Hydrogen
sulfide
(H2S)
has
garnered
enormous
attention
as
a
significant
gasotransmitter
with
various
physiological,
pathophysiological,
and
pharmacological
impacts
within
mammalian
cardiometabolic
systems.
In
addition
its
roles
in
attenuating
oxidative
stress
inflammatory
response,
burgeoning
research
emphasizes
significance
of
H2S
regulating
proteins
via
persulfidation,
well-known
modification
intricately
associated
pathogenesis
CMDs.
This
review
seeks
investigate
recent
updates
on
physiological
actions
endogenous
donors
addressing
diverse
aspects
CMDs
across
cellular,
animal,
clinical
studies.
Of
note,
advanced
methodologies
including
multi-omics,
intestinal
microflora
analysis,
organoid
single-cell
sequencing
techniques
gaining
traction
due
their
ability
offer
comprehensive
insights
into
biomedical
research.
These
emerging
approaches
hold
promise
characterizing
health
diseases.
We
will
critically
assesse
current
literatures
clarify
while
also
delineating
opportunities
challenges
they
present
H2S-based
pharmacotherapy
Significance
Statement
The
covers
developments
biology
pharmacology
Endogenous
show
great
management
by
numerous
signaling
pathways.
emergence
new
technologies
considerably
advance
translation
H2S.
