A metaproteomic analysis of the piglet fecal microbiome across the weaning transition
Frontiers in Microbiology,
Год журнала:
2025,
Номер
16
Опубликована: Май 2, 2025
Microbiome
analysis
has
relied
largely
on
metagenomics
to
characterize
microbial
populations
and
predict
their
functions.
Here,
we
used
a
metaproteomic
of
the
fecal
microbiome
in
piglets
before
after
weaning
compare
protein
abundances
as
they
pertain
specific
either
milk-
or
plant-based
diet.
Fecal
samples
were
collected
from
six
day
4
weeks
transitioning
standard
nursery
Using
12,554
groups
identified
samples,
confirmed
shift
composition
that
takes
place
response
succession
following
demonstrated
redundancy
metabolic
processes
between
taxa.
We
taxa
with
roles
primary
degraders
based
corresponding
proteins
synthesized,
thereby
providing
evidence
for
cross-feeding.
Proteins
associated
breakdown
milk-specific
carbohydrates
common
among
pre-weaned
pigs,
whereas
proteome
post-weaned
contained
greater
abundance
involved
breaking
down
plant-specific
carbohydrates.
Furthermore,
output
revealed
production
propionate
via
propionaldehyde
pathway
piglets,
but
changes
succinate
piglets.
Finally,
disproportionate
quantity
carbohydrate-active
enzymes
(CAZymes)
(~8%)
produced
by
fungi,
which
typically
only
represent
~0.1%
Information
gathered
through
this
characterization
metaproteome
important
differences
regarding
role
members
community,
information
optimization
diets
products
both
piglet
health.
Язык: Английский
Metaproteomics of human microbiota: progress and key challenges for precision medicine
Process Biochemistry,
Год журнала:
2025,
Номер
unknown
Опубликована: Май 1, 2025
Язык: Английский
The dawn of the revolution that will allow us to precisely describe how microbiomes function
Journal of Proteomics,
Год журнала:
2025,
Номер
316, С. 105430 - 105430
Опубликована: Март 11, 2025
The
community
of
microorganisms
inhabiting
a
specific
environment,
such
as
the
human
gut
-
including
bacteria,
fungi,
archaea,
viruses,
protozoa,
and
others
is
known
microbiota.
A
holobiont,
in
turn,
refers
to
an
integrated
ecological
unit
where
microbial
communities
function
interact
with
their
host,
thus
more
integrative
concept.
To
understand
processes
involved,
diversity
present
must
be
identified
molecular
components
quantified,
especially
proteins.
Indeed,
proteins
through
roles
catalytic
units,
structural
components,
signaling
molecules
are
main
drivers
biological
processes.
Metagenomics
has
significantly
expanded
what
we
know
about
genetic
material
microbiota,
revealing
functional
potential;
metabolomics
delivers
overall
snapshot
metabolites
produced
by
community.
But
metaproteomics
offers
complementary
approach
explore
microbiome
holobiont
functionality
focusing
on
active
pathways
from
each
taxon.
Significant
recent
advances
high-resolution
tandem
mass
spectrometry
have
greatly
catalog
peptide
sequences
accessible
sample,
creating
conditions
for
unprecedented
taxonomical
profiling,
while
also
providing
accurate
biomass
quantification,
detailed
protein
characterization,
greater
capacity
monitor
abundance
distinguish
host
biomarkers.
By
integrating
artificial
intelligence
into
pipeline,
extended
datasets
can
now
efficiently
mined
gain
comprehensive
view
complex
systems,
paving
way
next-generation
metaproteomics.
In
this
perspective,
I
discuss
transformative
potential
methodology.
We
cusp
remarkable
omic
revolution
that
promises
uncover
intricate
workings
microbiomes
producing
vast
array
new
knowledge
multiple
applications.
SIGNIFICANCE:
Metaproteomics
provides
powerful
lens
investigate
identifying
quantifying
within
Recent
breakthroughs
dramatically
repertoire
detectable
per
sample.
This
progress
enables
taxonomic
resolution
identification,
precise
monitoring,
unique
identification
commentary,
delve
distinctive
features
make
tool.
advancements
argue
primary
challenge
analyzing
samples
shifting
data
acquisition
interpretation.
With
integration
intelligence,
believe
poised
become
next
Big
Thing
research,
unlocking
profound
insights
ecosystem
dynamics.
Язык: Английский
Insights on Wet and Dry Workflows for Human Gut Metaproteomics
PROTEOMICS,
Год журнала:
2024,
Номер
unknown
Опубликована: Дек. 30, 2024
The
human
gut
microbiota
(GM)
is
a
community
of
microorganisms
that
resides
in
the
gastrointestinal
(GI)
tract.
Recognized
as
critical
element
health,
functions
GM
extend
beyond
GI
well-being
to
influence
overall
systemic
health
and
susceptibility
disease.
Among
other
omic
sciences,
metaproteomics
highlights
additional
facets
make
it
highly
valuable
discipline
study
GM.
Indeed,
allows
protein
inventory
complex
microbial
communities.
Proteins
with
associated
taxonomic
membership
function
are
identified
quantified
from
their
constituent
peptides
by
liquid
chromatography
coupled
mass
spectrometry
analyses
querying
specific
databases
(DBs).
aim
this
review
was
compile
comprehensive
information
on
metaproteomic
studies
GM,
focus
bacterial
component,
assist
newcomers
understanding
methods
types
research
conducted
field.
outlines
key
steps
metaproteomic-based
study,
such
extraction,
DB
selection,
bioinformatic
workflow.
importance
standardization
emphasized.
In
addition,
list
previously
published
provided
hints
for
researchers
interested
investigating
role
disease
states.
Язык: Английский