Gastroenterology,
Год журнала:
2017,
Номер
152(6), С. 1419 - 1433.e5
Опубликована: Янв. 23, 2017
Stool
samples
from
patients
with
colorectal
cancer
(CRC)
have
a
higher
abundance
of
Peptostreptococcus
anaerobius
than
stool
individuals
without
CRC,
based
on
metagenome
sequencing.
We
investigated
whether
P
contributes
to
colon
tumor
formation
in
mice
and
its
possible
mechanisms
carcinogenesis.We
performed
quantitative
polymerase
chain
reaction
analyses
measure
112
255
biopsies
CRC
or
advanced
adenoma
healthy
(controls)
undergoing
colonoscopy
examination
at
hospitals
Hong
Kong
Beijing.
C57BL/6
were
given
broad-spectrum
antibiotics,
followed
by
single
dose
azoxymethane,
induce
formation.
Three
days
later,
Esherichia
coli
MG1655
(control
bacteria),
via
gavage,
for
6
weeks.
Some
also
the
nicotinamide
adenine
dinucleotide
phosphate
oxidase
inhibitor
apocynin.
Intestine
tissues
collected
analyzed
histologically.
The
epithelial
cell
line
NCM460
lines
HT-29
Caco-2
exposed
control
bacteria;
cells
immunoblot,
proliferation,
bacterial
attachment
compared
gene
expression
profiling
studies.
Gene
was
knocked
down
these
small
interfering
RNAs.P
significantly
enriched
controls.
Mice
depleted
bacteria
azoxymethane
had
incidence
intestinal
dysplasia
(63%)
not
(8.3%;
<
.01).
mainly
colonized
rest
intestine.
Colon
levels
proliferation
cells.
found
genes
that
regulate
cholesterol
biosynthesis,
Toll-like
receptor
(TLR)
signaling,
AMP-activated
protein
kinase
signaling
be
up-regulated
anaerobius.
Total
increased
activation
sterol
regulatory
element-binding
2.
interacted
TLR2
TLR4
increase
intracellular
reactive
oxidative
species,
which
promoted
synthesis
proliferation.
Depletion
species
knockdown
TLR4,
incubation
an
antioxidant,
prevented
inducing
biosynthesis
proliferation.Levels
are
human
adenomas
non-tumor
tissues;
this
increases
mouse
model
CRC.
interacts
promotes
Culture-independent
analyses
of
microbial
communities
have
progressed
dramatically
in
the
last
decade,
particularly
due
to
advances
methods
for
biological
profiling
via
shotgun
metagenomics.
Opportunities
improvement
continue
accelerate,
with
greater
access
multi-omics,
reference
genomes,
and
strain-level
diversity.
To
leverage
these,
we
present
bioBakery
3,
a
set
integrated,
improved
taxonomic,
strain-level,
functional,
phylogenetic
metagenomes
newly
developed
build
on
largest
sequences
now
available.
Compared
current
alternatives,
MetaPhlAn
3
increases
accuracy
taxonomic
profiling,
HUMAnN
improves
that
functional
potential
activity.
These
detected
novel
disease-microbiome
links
applications
CRC
(1262
metagenomes)
IBD
(1635
817
metatranscriptomes).
Strain-level
an
additional
4077
StrainPhlAn
PanPhlAn
unraveled
structure
common
gut
microbe
Ruminococcus
bromii
,
previously
described
by
only
15
isolate
genomes.
With
open-source
implementations
cloud-deployable
reproducible
workflows,
platform
can
help
researchers
deepen
resolution,
scale,
multi-omic
community
studies.
A
signature
that
unifies
the
colorectal
cancer
(CRC)
microbiota
across
multiple
studies
has
not
been
identified.
In
addition
to
methodological
variance,
heterogeneity
may
be
caused
by
both
microbial
and
host
response
differences,
which
was
addressed
in
this
study.
Design
We
prospectively
studied
colonic
expression
of
specific
genes
using
faecal
mucosal
samples
('ON'
'OFF'
tumour,
proximal
distal)
from
59
patients
undergoing
surgery
for
CRC,
21
individuals
with
polyps
56
healthy
controls.
Microbiota
composition
determined
16S
rRNA
amplicon
sequencing;
involved
CRC
progression
immune
quantified
real-time
quantitative
PCR.
Results
The
differed
controls,
but
alterations
were
restricted
cancerous
tissue.
Differences
between
distal
cancers
detected
only
partially
reflected
CRC.
Patients
can
stratified
based
on
higher
level
structures
mucosal-associated
bacterial
co-abundance
groups
(CAGs)
resemble
previously
formulated
concept
enterotypes.
Of
these,
Bacteroidetes
Cluster
1
Firmicutes
decreased
abundance
mucosa,
whereas
2,
Pathogen
Prevotella
showed
increased
mucosa.
CRC-associated
CAGs
differentially
correlated
immunoinflammatory
genes.
Conclusions
profiles
differ
those
subjects
are
linked
distinct
gene-expression
profiles.
Compositional
tissue
cancers.
Gut,
Год журнала:
2020,
Номер
69(7), С. 1218 - 1228
Опубликована: Фев. 17, 2020
Objective
Ageing
is
accompanied
by
deterioration
of
multiple
bodily
functions
and
inflammation,
which
collectively
contribute
to
frailty.
We
others
have
shown
that
frailty
co-varies
with
alterations
in
the
gut
microbiota
a
manner
accelerated
consumption
restricted
diversity
diet.
The
Mediterranean
diet
(MedDiet)
associated
health.
In
NU-AGE
project,
we
investigated
if
1-year
MedDiet
intervention
could
alter
reduce
Design
profiled
612
non-frail
or
pre-frail
subjects
across
five
European
countries
(UK,
France,
Netherlands,
Italy
Poland)
before
after
administration
12-month
long
tailored
elderly
(NU-AGE
diet).
Results
Adherence
was
specific
microbiome
alterations.
Taxa
enriched
adherence
were
positively
several
markers
lower
improved
cognitive
function,
negatively
inflammatory
including
C-reactive
protein
interleukin-17.
Analysis
inferred
microbial
metabolite
profiles
indicated
diet-modulated
change
an
increase
short/branch
chained
fatty
acid
production
secondary
bile
acids,
p-cresols,
ethanol
carbon
dioxide.
Microbiome
ecosystem
network
analysis
showed
bacterial
taxa
responded
occupy
keystone
interaction
positions,
whereas
frailty-associated
are
peripheral
networks.
Conclusion
Collectively,
our
findings
support
feasibility
improving
habitual
modulate
turn
has
potential
promote
healthier
ageing.
Gut,
Год журнала:
2018,
Номер
68(6), С. 1014 - 1023
Опубликована: Июль 25, 2018
Objective
To
characterise
gut
microbiome
in
patients
with
hepatocellular
carcinoma
(HCC)
and
evaluate
the
potential
of
as
non-invasive
biomarkers
for
HCC.
Design
We
collected
486
faecal
samples
from
East
China,
Central
China
Northwest
prospectively
finally
419
completed
Miseq
sequencing.
characterised
microbiome,
identified
microbial
markers
constructed
HCC
classifier
75
early
HCC,
40
cirrhosis
healthy
controls.
validated
results
56
controls,
30
45
advanced
further
verified
diagnosis
18
Xinjiang
80
Zhengzhou.
Results
Faecal
diversity
was
increased
to
cirrhosis.
Phylum
Actinobacteria
versus
Correspondingly,
13
genera
including
Gemmiger
Parabacteroides
were
enriched
Butyrate-producing
decreased,
while
producing-lipopolysaccharide
The
optimal
through
a
fivefold
cross-validation
on
random
forest
model
achieved
an
area
under
curve
80.64%
between
105
non-HCC
samples.
Notably,
strong
even
Importantly,
successfully
cross-region
validation
China.
Conclusions
This
study
is
first
report
successful
establishment
Gut
microbiota-targeted
represent
tools
