bioRxiv (Cold Spring Harbor Laboratory),
Journal Year:
2024,
Volume and Issue:
unknown
Published: April 10, 2024
Abstract
Metagenomics
has
greatly
expanded
our
understanding
of
the
human
gut
microbiome
by
revealing
a
vast
diversity
bacterial
species
within
and
across
individuals.
Even
single
species,
different
strains
can
have
highly
divergent
gene
content,
affecting
traits
such
as
antibiotic
resistance,
metabolism,
virulence.
Methods
that
harness
metagenomic
data
to
resolve
strain-level
differences
in
functional
potential
are
crucial
for
causes
consequences
this
intraspecific
diversity.
The
enormous
size
pangenome
references,
strain
mixing
samples,
inconsistent
sequencing
depth
present
challenges
existing
tools
analyze
samples
one
at
time.
To
address
gap,
we
updated
MIDAS
profiler,
now
released
version
3,
developed
StrainPGC,
an
approach
strain-specific
content
estimation
combines
tracking
correlations
multiple
samples.
We
validate
integrated
analysis
using
complex
synthetic
community
from
find
StrainPGC
outperforms
approaches.
Analyzing
large,
publicly
available
metagenome
collection
inflammatory
bowel
disease
patients
healthy
controls,
catalog
repertoires
thousands
hundreds
capturing
extensive
missing
reference
databases.
Finally,
apply
metagenomes
clinical
trial
fecal
microbiota
transplantation
treatment
ulcerative
colitis.
identify
two
Escherichia
coli
donors
both
frequently
transmitted
patients,
but
notable
potential.
v3
together
enable
precise,
pangenomic
investigations
large
collections
without
microbial
isolation
or
de
novo
assembly.
Green Chemistry Letters and Reviews,
Journal Year:
2024,
Volume and Issue:
17(1)
Published: Feb. 2, 2024
This
study
aimed
to
synthesize
silver
nanoparticles
(VJ@AgNPs)
using
Valeriana
jatamansi
root
extract
and
assess
their
antibacterial,
antioxidant,
antibiofilm
properties
against
Escherichia
coli,
Staphylococcus
aureus,
Streptococcus
mutans.
Various
chemical
physical
characterization
methods
were
employed
analyze
the
synthesized
VJ@AgNPs.
UV-Visible
spectroscopy
confirmed
presence
of
VJ@AgNPs
with
a
peak
absorption
at
426
nm,
while
FT-IR
results
indicated
involvement
phyto-compounds
from
V.
in
reduction
stabilization
these
nanoparticles.
High-resolution
transmission
electron
microscopy
revealed
well-dispersed
spherical
nature
an
average
size
29.1
±
2.06
X-ray
diffraction
crystalline
structure.
The
biosynthesized
exhibited
significant
antibacterial
activity
all
tested
pathogens,
substantial
inhibition
zones
50
100
μg/mL
concentrations.
Additionally,
displayed
potent
antioxidant
capacity
scavenging
assays.
Furthermore,
showed
promise
photocatalytic
degradation,
effectively
removing
95%
RhB
dye
within
75
minutes
under
solar
light
irradiation,
following
pseudo-first-order
kinetics.
suggests
potential
application
wastewater
treatment
for
organic
removal.
biocompatible
environmentally
friendly
underscores
as
therapeutic
agents
bacterial
infections
oxidative
stress-related
diseases.
Journal of Agricultural and Food Chemistry,
Journal Year:
2025,
Volume and Issue:
unknown
Published: Jan. 8, 2025
Food
allergens
are
the
key
triggers
of
allergic
diarrhea,
causing
damage
to
immune-rich
ileum.
This
weakens
mucosal
barrier
and
tight
junctions,
increases
intestinal
permeability,
exacerbates
allergen
exposure,
thereby
worsening
condition.
Sesamin,
a
natural
lignan
isolated
from
sesame
seed,
has
shown
potential
in
regulating
immune
responses,
but
its
effects
on
health
remain
unclear.
In
this
study,
we
constructed
an
ovalbumin
(OVA)-induced
diarrhea
mouse
model,
which
demonstrated
increased
mast
cell
degranulation,
reduced
junction
integrity,
impaired
function.
Pro-inflammatory
cytokines
were
significantly
ileum,
along
with
unbalanced
cluster
differentiation
4
(CD4
Infection and Drug Resistance,
Journal Year:
2022,
Volume and Issue:
Volume 15, P. 4645 - 4673
Published: Aug. 1, 2022
Abstract:
Escherichia
coli
O157:H7
is
an
important
food-borne
and
water-borne
pathogen
that
causes
hemorrhagic
colitis
the
hemolytic-uremic
syndrome
in
humans
may
cause
serious
morbidity
large
outbreaks
worldwide.
People
with
bloody
diarrhea
have
increased
risk
of
developing
complications
such
as
acute
renal
failure
neurological
damage.
The
(HUS)
a
condition,
up
to
50%
HUS
patients
can
develop
long-term
dysfunction
or
blood
pressure-related
complications.
Children
aged
two
six
years
HUS.
Clinical
enteropathogenic
(EPEC)
infections
show
fever,
vomiting,
diarrhea.
EPEC
reservoir
unknown
but
suggested
be
asymptomatic
symptomatic
child
adult
carrier.
Spreading
often
through
fecal-oral
route.
prevalence
infants
low,
highly
contagious
children.
disease
children
tends
clinically
more
severe
than
other
diarrheal
infections.
Some
experience
persistent
lasts
for
14
days.
Enterotoxigenic
(ETEC)
strains
are
compelling
problem
disease.
ETEC
global
concern
bacteria
leading
watery
traveler's
It
chronic
affect
development
well-being
Infections
diarrheagenic
E.
common
African
countries.
Antimicrobial
agents
should
avoided
phase
since
studies
showed
antimicrobial
increase
South
National
Veterinary
Surveillance
Monitoring
Programme
Resistance
Drugs
has
reported
resistance
.
Pathogenic
bacterial
developed
variety
due
misuse.
induced
heavy
metal
tolerance
also
enhance
resistance.
depends
on
type
agent,
strain,
dose,
time,
mode
administration.
Developing
countries
severely
affected
by
poverty,
lack
proper
hygiene,
clean
water,
which
lead
limited
treatment
options
Keywords:
,
O157:H,
Shiga-toxins,
hemolysin,
LEE,
metagenomic,
PhiG17,
verotoxin,
zoonosis,
One
health,
resistance,
acid
Antibiotics,
Journal Year:
2023,
Volume and Issue:
12(6), P. 965 - 965
Published: May 26, 2023
The
number
of
multidrug-resistant
bacteria
is
rapidly
spreading
worldwide.
Among
the
various
mechanisms
determining
resistance
to
antimicrobial
agents,
multidrug
efflux
pumps
play
a
noteworthy
role
because
they
export
extraneous
and
noxious
substrates
from
inside
outside
environment
bacterial
cell
contributing
(MDR)
and,
consequently,
failure
anti-infective
therapies.
expression
can
be
under
control
transcriptional
regulators
two-component
systems
(TCS).
TCS
are
major
mechanism
by
which
microorganisms
sense
reply
external
and/or
intramembrane
stimuli
coordinating
genes
involved
not
only
in
pathogenic
pathways
but
also
antibiotic
resistance.
In
this
review,
we
describe
influence
on
pump
activity
some
Gram-negative
Gram-positive
bacteria.
Taking
into
account
strict
correlation
between
pumps,
development
drugs
targeting
TCS,
alone
or
together
with
already
discovered
inhibitors,
may
represent
beneficial
strategy
contribute
fight
against
growing
International Journal of Molecular Sciences,
Journal Year:
2023,
Volume and Issue:
24(3), P. 2448 - 2448
Published: Jan. 26, 2023
Shigella
species
are
the
main
cause
of
bacillary
diarrhoea
or
shigellosis
in
humans.
These
organisms
inhabitants
human
intestinal
tract;
however,
they
one
concerns
public
health
both
developed
and
developing
countries.
In
this
study,
we
reviewed
summarised
previous
studies
recent
advances
molecular
mechanisms
pathogenesis
Dysenteriae
non-Dysenteriae
species.
Regarding
presence
virulence
factor
encoding
genes
strains,
bacteria
categorised
into
clinical
groups.
uses
attachment,
invasion,
intracellular
motility,
toxin
secretion
host
cell
interruption
mechanisms,
causing
mild
diarrhoea,
haemorrhagic
colitis
haemolytic
uremic
syndrome
diseases
humans
through
expression
effector
delivery
systems,
protein
effectors,
toxins,
immune
system
evasion
iron
uptake
genes.
The
investigation
these
can
help
us
to
develop
design
new
methods
detect
differentiate
food
samples
determine
appropriate
strategies
prevent
treat
extraintestinal
infections
caused
by
enteric
pathogens.
Scientific Reports,
Journal Year:
2025,
Volume and Issue:
15(1)
Published: Feb. 20, 2025
Hemorrhagic
abomasitis,
also
known
as
Salivary
Abomasum
Disease
(SAD),
is
a
largely
under-researched
condition
affecting
young
lambs
and
kids,
often
leading
to
high
mortality
rates
significant
economic
losses.
The
disease's
etiopathogenesis,
risk
factors,
clinical
features
remain
poorly
understood.
Existing
studies
have
been
limited
fragmented,
misdiagnoses
confusion
about
its
true
nature.
Given
the
lack
of
comprehensive
investigation
into
SAD's
incidence,
causative
agents,
this
study
aims
provide
thorough
analysis
through
clinical,
necropsy,
histopathological,
microbiological,
molecular
examinations.
This
involved
633
with
323
in
SAD
group
310
control
group.
A
multifaceted
approach
was
utilized,
encompassing
evaluations,
necropsies,
histopathological
assessments,
microbiological
analyses,
focusing
on
investigating
virulence
genes.
During
kidding
season,
deaths
were
linked
SAD,
mean
disease
duration
1.34
±
0.54
days.
highest
incidence
occurred
8–14
day
age
group,
accounting
for
51.7%
cases
(p
<
0.05).
dominant
symptoms
included
weakness,
lethargy,
depression,
failure
suckle,
reluctance
move,
significantly
reduced
mobility,
unsteady
gait,
withdrawn
demeanor.
Necropsy
findings
consistently
showed
dark
hemorrhagic
content
abomasum
characteristic
"coffee
grain"
lesions,
no
abnormalities
other
organs.
Escherichia
coli
isolated
63%
sampled
more
than
controls
0.03),
confirmed
analysis.
Examination
genes
highlighted
presence
hlyA,
stx1,
cnf1,
stx2,
eaeA
complex
combinations
severe
damage.
Poor
bed
bottle
hygiene
identified
primary
factors
0.001),
escalating
later
stages
season
farm
conditions
deteriorated.
thoroughly
re-evaluates
abomasitis
delivering
valuable
reliable
insights
fatal
disease.
Based
it
strongly
indicates
E.
agent.
Environmental Microbiology,
Journal Year:
2022,
Volume and Issue:
25(12), P. 2681 - 2697
Published: Oct. 13, 2022
Abstract
Environmental
microplastic
(MP)
is
ubiquitous
in
aquatic
and
terrestrial
ecosystems
providing
artificial
habitats
for
microbes.
Mechanisms
of
MP
colonization,
polymer
impacts,
effects
on
soil
microbiomes
are
largely
unknown
systems.
Therefore,
we
experimentally
tested
the
hypothesis
that
type
an
important
deterministic
factor
affecting
community
assembly
by
incubating
common
types
situ
landfill
14
months.
16S
rRNA
gene
amplicon
sequencing
indicated
polymers
have
specific
impacts
plastisphere
microbiomes,
which
subsets
microbiome.
Chloroflexota,
Gammaproteobacteria,
certain
Nitrososphaerota,
Nanoarchaeota
explained
differences
among
time
points.
Plastisphere
microbial
composition
derived
from
different
diverged
over
was
enriched
potential
pathogens.
PICRUSt
predictions
pathway
abundances
quantitative
PCR
functional
marker
genes
exerted
ambivalent
effect
genetic
potentials
biogeochemical
cycles.
Overall,
data
indicate
(i)
as
rather
than
stochastic
factors
drives
assembly,
(ii)
greenhouse
gas
metabolism,
xenobiotic
degradation
pathogen
distribution,
(iii)
serves
ideal
model
system
studying
fundamental
questions
ecology
such
mechanisms
environments.
Trends in biotechnology,
Journal Year:
2023,
Volume and Issue:
41(7), P. 875 - 886
Published: Feb. 9, 2023
Single-domain
antibodies
(sdAbs)
are
exceptionally
stable
fragments
derived
from
the
antigen-binding
domains
of
immunoglobulins.
They
can
withstand
extreme
pH,
high
temperature,
and
proteolysis,
making
them
suitable
for
controlling
gastrointestinal
(GI)
infections
in
humans
animals.
sdAbs
may
function
their
native
soluble
form,
although
different
protein
formats
use
delivery
vehicles
be
useful
improved
oral
delivery.
We
discuss
selected
examples
orally
delivered
protecting
animals
against
GI
caused
by
pathogenic
bacteria,
viruses,
parasites.
finally
provide
perspectives
on
how
applied
industrially
what
challenges
should
overcome
to
reach
market.
The Journal of Antibiotics,
Journal Year:
2023,
Volume and Issue:
76(4), P. 225 - 235
Published: Feb. 1, 2023
Abstract
In
a
healthy
gut
microbiota,
short
chain
fatty
acids
(SCFAs)
are
produced.
The
antibacterial
action
of
SCFAs
against
intestinal
pathogens
makes
them
useful
for
ensuring
the
safety
food
and
human
health.
this
study,
we
aimed
to
assess
in
vitro
inhibitory
activity
SCFAs,
report,
first
time,
their
impact
on
new
β-lactam/β-lactamase
inhibitor
combinations.
minimum
concentrations
acetic,
propionic,
butyric
were
determined
E.
coli
clinical
isolates
recovered
from
gastrointestinal
infections.
Cefoperazone/sulbactam,
ceftazidime/avibactam
cefepime/enmetazobactam
combinations
that
studied
combined
therapeutic
effects.
Also,
effects
pH
concentration
evaluated
bacterial
growth
expression
genes
encoding
motility,
adhesion,
invasion,
biofilm
formation.
tested
at
12
mM
7.4
(ileum-conditions),
addition
60
123
mM,
6.5
(colon-conditions).
showed
same
MIC
(3750
μg
ml
−1
≃
mM)
all
isolates.
Furthermore,
greatly
restored
susceptibility
had
significant
effect
virulence
concentration-dependent
manner;
low
ileal
potentiated
growth,
while
higher
colonic
significantly
suppressed
down-regulated
(
fliC,
ipaH,
FimH,
BssS
).
Therefore,
might
lead
development
promising
treatment
strategies.