Siderophore synthetase-receptor gene coevolution reveals habitat- and pathogen-specific bacterial iron interaction networks
Science Advances,
Год журнала:
2025,
Номер
11(3)
Опубликована: Янв. 15, 2025
Bacterial
social
interactions
play
crucial
roles
in
various
ecological,
medical,
and
biotechnological
contexts.
However,
predicting
these
from
genome
sequences
is
notoriously
difficult.
Here,
we
developed
bioinformatic
tools
to
predict
whether
secreted
iron-scavenging
siderophores
stimulate
or
inhibit
the
growth
of
community
members.
Siderophores
are
chemically
diverse
can
be
stimulatory
inhibitory
depending
on
bacteria
have
lack
corresponding
uptake
receptors.
We
focused
1928
representative
Pseudomonas
genomes
an
experimentally
validated
coevolution
algorithm
match
encoded
siderophore
synthetases
receptor
groups.
derived
community-level
iron
interaction
networks
show
that
siderophore-mediated
differ
across
habitats
lifestyles.
Specifically,
dense
sharing
competition
were
observed
among
environmental
nonpathogenic
species,
while
small,
fragmented
occurred
human-associated
pathogenic
species.
Together,
our
sequence-to-ecology
approach
empowers
analyses
thousands
bacterial
strains
offers
opportunities
for
targeted
intervention
microbial
communities.
Язык: Английский
Lactuchelins: New lipopeptide siderophores from Pseudomonas lactucae inhibit Xanthomonas campestris pv. campestris 8004
bioRxiv (Cold Spring Harbor Laboratory),
Год журнала:
2025,
Номер
unknown
Опубликована: Фев. 28, 2025
Abstract
Seeds
harbor
diverse
microbial
communities,
including
beneficial
microbes
that
play
a
vital
role
in
protecting
plants
from
seed-borne
pathogens.
Despite
their
critical
importance,
the
molecular
mechanisms
driving
intermicrobial
competition
within
seed
microbiome
remain
poorly
understood,
limiting
potential
to
optimize
inoculation
strategies.
In
this
study,
we
evaluated
inhibitory
of
30
bacterial
strains
against
phytopathogen
Xanthomonas
campestris
pv.
8004
(Xcc8004).
We
identified
Pseudomonas
lactucae
CFBP13502
as
potent
inhibitor
Xcc8004,
mediated
by
exometabolites
specifically
induced
presence
Lysobacterales
(formerly
Xanthomonadales).
Transcriptomic
analysis
revealed
upregulation
gene
cluster
involved
biosynthesis
lipopeptide
siderophore
biosynthesis.
Gene
deletion
confirmed
is
essential
for
growth
inhibition
Xcc8004.
Furthermore,
iron
supplementation
abolished
effect,
providing
strong
evidence
chelation.
Through
comparative
metabolomics,
elucidated
structure
novel
family
siderophores,
which
named
lactuchelins,
produced
CFBP13502.
Our
findings
provide
first
competitive
exclusion
at
interface,
highlighting
lactuchelins
promising
avenue
development
seed-based
biocontrol
strategies
phytopathogens.
Язык: Английский
Feature sequence-based genome mining uncovers the hidden diversity of bacterial siderophore pathways
eLife,
Год журнала:
2024,
Номер
13
Опубликована: Май 1, 2024
Microbial
secondary
metabolites
are
a
rich
source
for
pharmaceutical
discoveries
and
play
crucial
ecological
functions.
While
tools
exist
to
identify
metabolite
clusters
in
genomes,
precise
sequence-to-function
mapping
remains
challenging
because
neither
function
nor
substrate
specificity
of
biosynthesis
enzymes
can
accurately
be
predicted.
Here,
we
developed
knowledge-guided
bioinformatic
pipeline
solve
these
issues.
We
analyzed
1928
genomes
Pseudomonas
bacteria
focused
on
iron-scavenging
pyoverdines
as
model
metabolites.
Our
predicted
188
chemically
different
with
nearly
100%
structural
accuracy
the
presence
94
distinct
receptor
groups
required
uptake
iron-loaded
pyoverdines.
unveils
an
enormous
yet
overlooked
diversity
siderophores
(151
new
structures)
receptors
(91
groups).
approach,
combining
feature
sequence
phylogenetic
approaches,
is
extendable
other
microbial
genera,
thus
emerges
powerful
tool
reconstruct
bacterial
metabolism
pathways
based
data.
Язык: Английский
Forging the iron‐net: Towards a quantitative understanding of microbial communities via siderophore‐mediated interactions
Quantitative Biology,
Год журнала:
2025,
Номер
13(2)
Опубликована: Янв. 10, 2025
Abstract
Iron
is
a
critical
yet
limited
nutrient
for
microbial
growth.
To
scavenge
iron,
most
microbes
produce
siderophores—diverse
small
molecules
with
high
iron
affinities.
Different
siderophores
are
specifically
recognized
and
uptaken
by
corresponding
recognizers,
enabling
targeted
interventions
intriguing
cheater‐producer
dynamics.
We
propose
constructing
comprehensive
interaction
network,
or
“iron‐net”,
across
the
world.
Such
network
offers
potential
precise
manipulation
of
microbiota,
conceivable
applications
in
medicine,
agriculture,
industry
as
well
advancing
ecology
evolution
theories.
Previously,
our
successful
construction
an
iron‐net
Pseudomonas
genus
demonstrated
feasibility
coevolution‐inspired
digital
siderophore‐typing.
Enhanced
machine
learning
techniques
expanding
sequencing
data,
forging
such
calls
multidisciplinary
collaborations
holds
significant
promise
addressing
challenges
communities.
Язык: Английский
Microbial siderophores for One Health
Trends in Microbiology,
Год журнала:
2025,
Номер
unknown
Опубликована: Июнь 1, 2025
One
Health
is
an
integrative
concept
striving
for
healthy
environments,
animals,
and
humans.
Microbes
play
a
fundamental
role
this
as
they
are
key
drivers
of
ecosystem
stability
host
health.
A
central
microbial
feature
across
various
environments
the
secretion
siderophores,
low-molecular-weight
metabolites
that
chelate
ferric
iron
(Fe3+)
with
high
affinity.
We
propose
that,
by
steering
metal
availability,
siderophores
can
be
important
in
four
areas
via:
(i)
enhancing
crop
yield,
(ii)
mitigating
heavy
pollution,
(iii)
preventing
pathogen
colonization,
(iv)
serving
potential
treatments
established
infections.
Collectively,
attractive
molecules
to
complement
our
efforts
increasing
human,
animal,
environmental
Язык: Английский