Microbiome,
Journal Year:
2025,
Volume and Issue:
13(1)
Published: April 30, 2025
Interactions
between
fungi
and
bacteria
have
the
potential
to
substantially
influence
soil
carbon
dynamics
in
soil,
but
we
yet
fully
identify
these
interactions
partners
their
natural
environment.
In
this
study,
stacked
two
powerful
methods,
13C
quantitative
stable
isotope
probing
(qSIP)
cross-domain
co-occurrence
network,
interacting
a
California
grassland
soil.
We
used
in-field
whole
plant
13CO2
labeling
along
with
sand-filled
ingrowth
bags
(that
trap
hyphae-associated
bacteria)
amplify
signal
of
fungal-bacterial
interactions,
separate
from
bulk
background.
found
total
54
bacterial
ASVs
9
fungal
OTUs
that
were
significantly
13C-enriched.
These
saprotrophic
biotrophic
fungi,
motile,
sometimes
predatory
bacteria.
Among
these,
70%
all
13C-enriched
identified
motile.
Notably,
detected
network
links
OTU
genus
Alternaria
several
genera
Bacteriovorax,
Mucilaginibacter,
Flavobacterium,
providing
empirical
evidence
direct
through
C
exchange.
observed
strong
positive
pattern
phylum
Bdellovibrionota
OTUs,
suggesting
transfer
across
food
web.
To
date,
our
ability
associate
microbial
patterns
biological
is
limited,
incorporation
qSIP
allowed
us
more
precisely
detect
by
narrowing
on
taxa
actively
incorporating
plant-fixed,
fungal-transported
labeled
substrates.
Together,
approaches
can
help
build
mechanistic
understanding
complex
nature
Nature Communications,
Journal Year:
2024,
Volume and Issue:
15(1)
Published: June 26, 2024
Abstract
Activated
sludge
is
the
centerpiece
of
biological
wastewater
treatment,
as
it
facilitates
removal
sewage-associated
pollutants,
fecal
bacteria,
and
pathogens
from
through
semi-controlled
microbial
ecology.
It
has
been
hypothesized
that
horizontal
gene
transfer
spread
antibiotic
resistance
genes
within
treatment
plant,
in
part
because
presence
residual
antibiotics
sewage.
However,
there
surprisingly
little
evidence
to
suggest
select
for
at
plants
via
or
otherwise.
We
addressed
role
promoting
using
lab-scale
sequencing
batch
reactors
fed
field-collected
wastewater,
metagenomic
sequencing,
our
recently
developed
bioinformatic
tool
Kairos.
Here,
we
found
confirmatory
fluctuating
levels
sewage
are
associated
with
genes,
ecology,
microdiversity-level
differences
fate
activated
sludge.
Microorganisms,
Journal Year:
2025,
Volume and Issue:
13(4), P. 848 - 848
Published: April 8, 2025
Rhizodegradation
enhances
pollutant
degradation
through
plant–microbe
interactions
in
the
rhizosphere.
Plant
roots
provide
a
colonisation
surface
and
root
exudates
that
promote
microbial
abundance
activity,
facilitating
organic
breakdown
via
direct
co-metabolism.
This
study
assessed
rhizodegradation
of
weathered
petroleum
hydrocarbons
(PHCs)
heavy
metal
co-contaminated
soil
microcosm-scale
pot
trial.
Treatments
included
Sinapis
alba,
Lolium
perenne,
L.
perenne
+
Trifolium
repens
mix,
Cichorium
intybus,
alongside
non-planted
control.
After
14
weeks,
PHC
concentrations
were
analysed
gas
chromatography,
rhizosphere
communities
characterised
sequencing.
alba
achieved
highest
(68%),
significantly
exceeding
control
(p
<
0.05,
Kruskal–Wallis
test).
Hydrocarbon-degrading
bacteria,
including
KCM-B-112,
C1-B045,
Hydrogenophaga,
unclassified
Saccharimonadales
sp.,
Pedobacter,
enriched
rhizosphere,
with
uncultured
clade
mle1-27
potentially
contributing
indirectly.
Metals
analysis
plant
tissues
showed
mustard
could
accumulate
copper
more
than
lead
zinc,
despite
higher
zinc
soil.
These
results
highlight
potential
S.
for
rhizoremediation
PHC–heavy
soils.
Water Research X,
Journal Year:
2023,
Volume and Issue:
20, P. 100196 - 100196
Published: Aug. 13, 2023
Deciphering
unclear
microbial
interactions
is
key
to
improving
biological
wastewater
treatment
processes.
Microbial
predation
and
parasitism
in
ecosystems
are
unexplored
survival
strategies
that
have
long
been
known
recently
attracted
attention
because
these
interspecies
may
contribute
the
reduction
of
excess
sludge.
Here,
community
profiling
600
activated
sludge
samples
taken
from
six
industrial
one
municipal
processes
(WWTPs)
was
conducted.
To
identify
shared
lineages
WWTPs,
constituents
were
defined
as
family
level
taxa
had
≥
0.1%
average
relative
abundance
detected
all
The
analysis
assigned
106
families
WWTPs.
Correlation
showed
98
significantly
correlated
with
total
carbon
(TC)
and/or
nitrogen
(TN)
concentrations,
suggesting
they
remediation.
Most
possible
predatory
or
parasitic
bacteria
belonging
phyla
Bdellovibrionota,
Myxococcota,
Candidatus
Patescibacteria
found
be
negatively
TC/TN;
thus,
frequently
present
WWTPs
could
involved
removal
carbon/nitrogen
derived
cell
components.
Shotgun
metagenome-resolved
metabolic
reconstructions
indicated
gene
homologs
associated
conserved
Ca.
genomes
(e.g.,
host
interaction
(hit)
locus,
Tad-like
secretion
complexes,
type
IV
pilus
assembly
proteins).
This
study
provides
insights
into
complex
potentially
linked
biomass
Natural Product Reports,
Journal Year:
2024,
Volume and Issue:
41(6), P. 905 - 934
Published: Jan. 1, 2024
This
review
presents
a
comprehensive
overview
of
recent
advances
in
the
discovery
methodologies,
new
structures,
bioactivities,
and
unique
biosynthetic
logics
myxobacterial
natural
products
reported
from
January
2017
to
November
2023.
Microorganisms,
Journal Year:
2023,
Volume and Issue:
11(7), P. 1673 - 1673
Published: June 27, 2023
Predatory
bacteria,
along
with
the
biology
of
their
predatory
behavior,
have
attracted
interest
in
terms
ecological
significance
and
industrial
applications,
a
trend
that
has
been
even
more
pronounced
since
comprehensive
review
2016.
This
mini-review
does
not
cover
research
trends,
such
as
role
outer
membrane
vesicles
myxobacterial
predation,
but
provides
an
overview
classification
newly
described
taxa
bacteria
2016,
particularly
regard
to
phylogenetic
aspects.
Among
them,
it
is
noteworthy
2020
there
was
major
reorganization
hosting
Bdellovibrio
Myxococcus,
formerly
classified
Deltaproteobacteria,
were
proposed
new
phyla
Bdellovibrionota
Myxococcota,
respectively.
reported
from
other
phyla,
especially
candidate
divisions.
prey
on
cyanobacteria
Chlorella
also
found.
These
are
covered
this
mini-review,
trans-phylum
trees
presented.
