Cell Host & Microbe,
Год журнала:
2024,
Номер
32(4), С. 557 - 572.e6
Опубликована: Фев. 22, 2024
Bacterial
defense
against
phage
predation
involves
diverse
systems
acting
individually
and
concurrently,
yet
their
interactions
remain
poorly
understood.
We
investigated
>100
in
42,925
bacterial
genomes
identified
numerous
instances
of
non-random
co-occurrence
negative
association.
For
several
pairs
significantly
co-occurring
Escherichia
coli
strains,
we
demonstrate
synergistic
anti-phage
activity.
Notably,
Zorya
II
synergizes
with
Druantia
III
ietAS
systems,
while
tmn
exhibits
synergy
Gabija,
Septu
I,
PrrC.
co-opts
the
sensory
switch
ATPase
domain,
enhancing
Some
system
that
are
negatively
associated
E.
show
co-occur
other
taxa,
demonstrating
immune
repertoires
largely
shaped
by
selection
for
resistance
host-specific
phages
rather
than
epistasis.
Collectively,
these
findings
compatibility
between
allowing
bacteria
to
adopt
flexible
strategies
defense.
PLoS Biology,
Год журнала:
2024,
Номер
22(8), С. e3002746 - e3002746
Опубликована: Авг. 7, 2024
Understanding
the
dynamic
evolution
of
Salmonella
is
vital
for
effective
bacterial
infection
management.
This
study
explores
role
flexible
genome,
organised
in
regions
genomic
plasticity
(RGP),
shaping
pathogenicity
lineages.
Through
comprehensive
analysis
12,244
spp.
genomes
covering
2
species,
6
subspecies,
and
46
serovars,
we
uncover
distinct
integration
patterns
pathogenicity-related
gene
clusters
into
RGP,
challenging
traditional
views
distribution.
These
RGP
exhibit
preferences
specific
spots,
presence
or
absence
such
spots
across
lineages
profoundly
shapes
strain
pathogenicity.
are
guided
by
conserved
flanking
genes
surrounding
implicating
their
involvement
regulatory
networks
functional
synergies
with
integrated
clusters.
Additionally,
emphasise
multifaceted
contributions
plasmids
prophages
to
diverse
Overall,
this
provides
a
blueprint
potential
.
unique
insight
identifies
nonpathogenic
that
hold
harbouring
genes,
providing
foundation
predicting
future
adaptations
developing
targeted
strategies
against
emerging
human
pathogenic
strains.
bioRxiv (Cold Spring Harbor Laboratory),
Год журнала:
2024,
Номер
unknown
Опубликована: Фев. 29, 2024
Abstract
Prokaryotes
have
evolved
a
wide
repertoire
of
defense
systems
to
prevent
invasion
by
mobile
genetic
elements
(MGE).
However,
because
MGE
are
vehicles
for
the
exchange
beneficial
accessory
genes,
could
consequently
impede
rapid
adaptation
in
microbial
populations.
Here,
we
study
how
impact
horizontal
gene
transfer
(HGT)
short
and
long
terms.
By
combining
comparative
genomics
phylogeny-aware
statistical
methods,
quantified
association
between
presence
7
widespread
abundance
genomes
196
bacterial
1
archaeal
species.
We
also
calculated
differences
rates
gain
loss
lineages
that
possess
lack
each
system.
Our
results
show
on
HGT
is
highly
taxon-
system-dependent.
CRISPR-Cas
stands
out
as
system
most
often
associates
with
decrease
number
reduced
acquisition.
Timescale
analysis
reveals
must
persist
lineage
relatively
time
exert
an
appreciable
negative
HGT.
In
contrast,
at
evolutionary
times,
systems,
MGE,
tend
be
positively
correlated.
Based
these
given
high
turnover
experienced
propose
inhibitory
effect
masked
recent
co-transfer
events
involving
MGE.
ABSTRACT
The
continuous
interaction
between
phages
and
their
respective
hosts
has
resulted
in
the
evolution
of
multiple
bacterial
immune
mechanisms.
However,
diversity
prevalence
antiviral
defense
systems
complex
communities
are
still
unknown.
We
therefore
investigated
abundance
viral
3,038
high-quality
archaeal
genomes
from
rumen.
In
total,
14,241
31,948
antiviral-related
genes
were
identified.
Those
represented
114
unique
system
types
grouped
into
49
families.
observed
a
high
genomes.
number
systems,
families,
density
varied
widely
genome
to
genome.
Additionally,
per
correlated
positively
with
families
size.
Restriction
modification,
Abi,
cas
most
common,
but
many
rare
present
only
1%
Antiviral
prevalent
diverse
rumen,
few
dominant,
indicating
that
rarely
present.
collection
throughout
rumen
may
represent
pool
mechanisms
can
be
shared
by
different
members
community
modulate
phage–host
interaction.
IMPORTANCE
Phages
act
antagonistically
at
cell
level
have
mutualistic
microbiome
level.
This
shapes
structure
microbial
is
mainly
driven
mechanism.
such
mechanism
larger
than
previously
thought.
Because
that,
we
described
genomes,
metagenome-assembled
(MAGs)
isolates,
While
seem
among
bacteria
archaea,
common.
suggests
these
not
microbes
could
community.
consistent
“pan-immune
system”
model,
which
appears
common
across
environments.
Viruses,
Год журнала:
2025,
Номер
17(2), С. 189 - 189
Опубликована: Янв. 29, 2025
Pseudomonas
aeruginosa,
an
opportunistic
pathogen,
causes
various
biofilm-associated
infections
like
pneumonia,
in
cystic
fibrosis
patients,
and
urinary
tract
burn
with
high
morbidity
mortality,
as
well
low
treatment
efficacy
due
to
the
extremely
wide
spread
of
isolates
multidrug
resistance.
Here,
we
report
new
bacteriophage
phage
Ka2
isolated
from
a
tributary
stream
Lake
Baikal
belonging
Pbunavirus
genus.
Transmission
electron
microscopy
resolved
that
has
capsid
57
±
9
nm
contractile
inflexible
tail
115
10
non-contracted
state.
The
genome
consists
66,310
bp
GC
content
55%
contains
96
coding
sequences.
Among
them,
52
encode
proteins
have
known
functions,
none
them
are
potentially
associated
lysogeny.
lyses
21
30
P.
aeruginosa
clinical
decreases
MIC
amikacin,
gentamicin,
cefepime
up
16-fold
colistin
32-fold.
When
treating
biofilms
Ka2,
biomass
was
reduced
by
twice,
32-fold
decrease
antibiotics
MBC
against
biofilm-embedded
cells
achieved
combination
for
PAO1
strain,
along
either
amikacin
or
isolates.
Taken
together,
these
data
characterize
promising
tool
combined
biofilms.
Microbiology Spectrum,
Год журнала:
2025,
Номер
unknown
Опубликована: Фев. 5, 2025
ABSTRACT
Pseudomonas
aeruginosa
is
a
bacterial
pathogen
that
major
cause
of
lung
infections
in
cystic
fibrosis
(CF)
and
other
patients.
Isolates
P.
from
CF
patients
commonly
carry
filamentous
phages
(Pf
phages),
which
constitute
family
temperate
known
to
be
related
biofilm
production
antibiotic
sequestration.
In
this
study,
we
identified
12
new
Pf
phage
genomes
collection
clinical
isolates
Study
the
anti-phage
defense
systems
revealed
presence
89
such
systems,
eight
were
encoded
genomes.
Finally,
although
weak
relation
between
resistance
infection
number
was
detected,
it
observed
these
phages.
IMPORTANCE
Bacteria
harbor
wide
range
mechanisms
avoid
hamper
application
therapy
because
they
can
lead
rapid
acquisition
resistance.
found
genome
presents
56%
.
The
high
prevalence
underlines
importance
our
findings
about
newly
discovered
role
infections.
Thus,
knowledge
anti-defense
system
could
useful
assessing
possible
treat
an
infectious
disease.
Abstract
The
rise
of
antibiotic
resistance
motivates
a
revived
interest
in
phage
therapy.
However,
bacteria
possess
dozens
anti-bacteriophage
immune
systems
that
confer
to
therapeutic
phages.
Chemical
inhibitors
these
anti-phage
could
be
employed
as
adjuvants
overcome
phage-based
therapies.
Here,
we
report
can
selectively
inhibited
by
small
molecules,
thereby
sensitizing
phage-resistant
We
discovered
class
chemical
inhibit
the
type
II
Thoeris
system.
These
block
biosynthesis
histidine-ADPR
intracellular
‘alarm’
signal
ThsB
and
prevent
ThsA
from
arresting
replication.
promiscuously
diverse
bacteria—including
antibiotic-resistant
pathogens.
inhibition
defense
improved
efficacy
model
therapy
against
strain
P.
aeruginosa
mouse
infection,
suggesting
potential.
Furthermore,
may
tools
dissect
importance
system
for
natural
microbial
communities.
Communications Biology,
Год журнала:
2025,
Номер
8(1)
Опубликована: Фев. 22, 2025
Abstract
Bacteria
possess
numerous
defense
systems
against
phage
infections,
which
limit
infectivity
and
pose
challenges
for
therapy.
This
study
aimed
to
engineer
phages
capable
of
evading
these
systems,
using
the
Tmn
system
as
a
model.
We
identified
an
anti-Tmn
protein
in
ΦSMS22
from
Dhillonvirus
genus
that
inhibits
function
Escherichia
coli
.
Introducing
this
gene
into
Tmn-sensitive
ΦKSS9
enabled
it
evade
immunity.
Additionally,
we
found
single
mutation
nmad5
gene,
DNA
modification
enzyme
,
prevented
sensing
infection.
By
mutating
demonstrated
engineering
bacterial
mechanisms
is
another
viable
strategy.
These
two
approaches—introducing
anti-defense
genes
sensing-related
genes—present
promising
strategy
establishing
effective
therapy
by
neutralizing
systems.
