bioRxiv (Cold Spring Harbor Laboratory),
Journal Year:
2024,
Volume and Issue:
unknown
Published: May 9, 2024
Urbanization
is
a
leading
cause
of
global
biodiversity
loss,
but
its
impact
on
soil
microorganisms
and
biogeochemistry
remains
uncertain.
To
address
this
gap,
we
investigate
urban
microbiome
composition
using
metagenomic
sequences
from
the
Global
Urban
Soil
Environment
Ecology
Network
(GLUSEEN).
We
seek
to
reveal
(1)
changes
in
taxonomic
functional
potential
(2)
ubiquitous
(core)
taxa
metabolisms
across
microbiome.
hypothesize
that
diversity
are
correlated
due
unique
selective
pressures
ecosystem,
for
carbon,
nutrient,
pollutant
cycling
key
feature
find
Baltimore
microbiomes
distinct
all
other
cities,
displaying
highest
lowest
diversity.
Only
66.3%
highlighting
differing
within
similar
microbial
taxa.
Metabolic
processes
involving
carbon
nitrogen
abundant,
as
well
xenobiotic
degradation.
Core
microbiota
include
many
common
bacteria
methane-
nitrogen-cycling
archaea.
Understanding
predominant
characteristics
taxonomy
soils
will
aid
understanding
feedback
between
growing
metropolitan
areas
driving
climate
change.
Global Ecology and Conservation,
Journal Year:
2024,
Volume and Issue:
53, P. e03009 - e03009
Published: May 26, 2024
This
study
aimed
to
explore
the
impact
of
aggregate
spray-seeding
(ASS)
restoration
measures
on
soil
proteobacterial
community.
Using
environmental
DNA
sequencing,
we
analyzed
communities
in
soils
3
natural
vegetation
(NV)
plots,
traditional
afforestation
(TA)
and
12
(SR)
plots
located
Triangle
Island
Zhuhai
city,
China,
during
both
summer
winter
seasons.
We
estimated
metabolic
function,
nutritional
type,
life
strategy
Proteobacteria
through
FAPROTAX
rrnDB
databases.
Our
findings
demonstrated
that
was
predominant
phylum
(relative
abundance
=
40.1–48.4%)
bacterial
across
all
three
treatments.
The
relative
Alphaproteobacteria
ranged
from
28.5%
38.1%,
which
significantly
greater
(2.6–10.3
times,
p
<
0.05)
than
Betaproteobacteria
or
Gammaproteobacteria.
Most
(90%)
genera
rhizobial
found
NV
TA
were
also
present
SR
soil,
but
there
distinct
differences
community
structures
between
NV/TA
soil.
Across
seasons
treatments,
related
functions
such
as
ureolysis,
nitrogen
fixation,
nitrate
reduction,
hydrocarbon
degradation.
associated
with
chitinolysis
soils.
Among
overall
community,
chemoheterotrophic,
chemoautotrophic,
phototrophic
bacteria
accounted
for
65–77%,
19–31%,
less
5%,
respectively.
tended
be
K
strategic,
while
Gammaproteobacteria
r
strategic.
pH,
organic
carbon
content,
content
correlated
function
type
according
Mantel
test
results.
In
conclusion,
application
ASS
technique
can
effectively
restore
biodiversity,
nutritional-type
structure
Additionally,
this
highlights
certain
undergo
changes
response
use
materials.
These
suggest
targeted
addition
specific
repair
materials
modulate
microorganism
functionality
provide
a
valuable
theoretical
foundation
ecological
engineering
practices.
Applied Microbiology and Biotechnology,
Journal Year:
2024,
Volume and Issue:
108(1)
Published: July 12, 2024
Abstract
Fertilizer
input
is
one
of
the
effective
forest
management
practices,
which
improves
soil
nutrients
and
microbial
community
compositions
promotes
productivity.
However,
few
studies
have
explored
response
rhizosphere
communities
to
various
fertilization
regimes
across
seasonal
dynamics.
Here,
we
collected
samples
from
Phoebe
bournei
plantations
investigate
assemblages
interactions
microbiome
short-term
application
four
typical
fertilizer
practices
(including
chemical
(CF),
organic
(OF),
compound
(CMF),
no
control
(CK)).
The
amendments
altered
composition
bacterial
fungal
communities,
respectively.
regime
significantly
affected
diversity
rather
than
diversity,
fungi
responded
more
sensitively
bacteria
season.
Fertilization-induced
networks
were
complex
networks.
Stochastic
processes
governed
both
drift
dispersal
limitation
dominated
Collectively,
these
findings
demonstrate
contrasting
responses
practices.
strengthens
changes
succession
key
taxa
in
habitat.
Key
points
•
Fertilization
interaction
Organic
facilitated
turnover
Stochasticity
assembly
Ecological Applications,
Journal Year:
2024,
Volume and Issue:
34(5)
Published: May 13, 2024
Abstract
Predicting
how
biological
communities
assemble
in
restored
ecosystems
can
assist
conservation
efforts,
but
most
research
has
focused
on
plants,
with
relatively
little
attention
paid
to
soil
microbial
organisms
that
plants
interact
with.
Arbuscular
mycorrhizal
(AM)
fungi
are
an
ecologically
significant
functional
group
of
microbes
form
mutualistic
symbioses
and
could
therefore
respond
positively
plant
community
restoration.
To
evaluate
the
effects
restoration
AM
fungi,
we
compared
fungal
abundance,
species
richness,
composition
five
annually
cultivated,
conventionally
managed
agricultural
fields
paired
adjacent
retired
had
undergone
prairie
5–9
years
prior
sampling.
We
hypothesized
stimulates
abundance
particularly
for
disturbance‐sensitive
taxa,
gains
new
taxa
would
not
displace
present
due
legacy
effects.
was
quantified
by
measuring
spore
density
root
colonization.
richness
were
determined
soils
roots
using
DNA
high‐throughput
sequencing.
Soil
2.3
times
higher
prairies
fields,
colonization
did
differ
between
land
use
types.
2.7
1.4
versus
roots,
respectively.
The
Glomeraceae,
a
disturbance‐tolerant
family,
decreased
25%
from
roots.
Claroideoglomeraceae
Diversisporaceae,
both
families,
4.6
3.2
soils,
Species
turnover
than
expected
relative
null
model,
indicating
gained
replacement.
Our
findings
demonstrate
promote
rapid
increase
diversity
been
degraded
decades
intensive
use,
compositional
change
be
predicted
disturbance
tolerance
taxonomic
groups.
Agriculture,
Journal Year:
2025,
Volume and Issue:
15(1), P. 77 - 77
Published: Jan. 1, 2025
The
potential
of
biochar
to
mediate
shifts
in
soil
microbial
communities
caused
by
polycyclic
aromatic
hydrocarbon
(PAH)
stress
farmland,
thus
assisting
the
bioremediation
contaminated
soil,
remains
uncertain.
This
study
introduced
wheat
straw
biochars
generated
at
300
°C
(W300)
and
500
(W500)
varying
levels
(1%
2%
w/w)
into
agricultural
with
phenanthrene
2.5
25
mg/kg.
aim
was
investigate
their
effects
on
community
structure
degradation
indigenous
microbes.
Biochar
application
both
slightly
(PLS)
heavily
(PHS)
soils
increased
overall
microbial/bacterial
biomass,
preserved
bacterial
diversity,
selectively
enriched
certain
genera,
which
were
suppressed
stress,
through
sorption
enhancement
biotoxicity
alleviation.
abundances
PAH-degrading
genera
nidA
gene
promoted
biochar,
especially
W300,
PHS
due
nutrient
improvement,
enhancing
biodegradation.
However,
PLS,
particularly
W500,
inhibited
abundance
a
reduction
bioavailability
specific
degraders,
hindering
These
findings
suggest
that
applying
produced
appropriate
temperatures
can
benefit
ecology
facilitate
PAH
elimination,
offering
sustainable
strategy
for
utilizing
resources
safeguarding
health
product
quality.
Microorganisms,
Journal Year:
2025,
Volume and Issue:
13(4), P. 759 - 759
Published: March 27, 2025
Qinghai
Lake,
the
largest
inland
saline
lake
in
China,
plays
a
vital
role
wetland
carbon
cycling.
However,
structure
and
function
of
soil
bacterial
communities
its
estuarine
nearshore
wetlands
remain
unclear.
This
study
examined
effects
type
depth
on
diversity,
community
composition,
functional
potential
Shaliu,
Heima,
Daotang
River
using
high-throughput
sequencing.
The
results
showed
that
significantly
influenced
communities.
Nearshore
exhibited
lower
diversity
0–10
cm
layer,
while
deeper
soils
(10–20
cm)
greater
regional
differentiation.
Estuarine
were
enriched
with
Proteobacteria,
Actinobacteriota,
Chloroflexi,
whereas
dominated
by
Actinobacteriota
Cyanobacteria.
Functionally,
had
higher
sulfate
reduction
anaerobic
decomposition
potential,
Desulfovibrio,
Desulfobacter,
Desulfotomaculum
regulating
sulfur
cycling
decomposition.
In
contrast,
nitrogen
fixation
organic
matter
degradation,
facilitated
Rhizobium,
Azotobacter,
Clostridium,
nitrogen-fixing
Cyanobacteria
(e.g.,
Anabaena,
Nostoc).
Microbial
metabolic
functions
varied
depth:
surface
(0–10
favored
environmental
adaptation
lipid
metabolism
DNA
repair
strategies
for
low-oxygen
adaptation.
These
findings
highlight
spatial
heterogeneity
their
biogeochemical
cycles,
providing
insights
into
dynamics
informing
conservation
strategies.
IOP Conference Series Earth and Environmental Science,
Journal Year:
2025,
Volume and Issue:
1457(1), P. 012006 - 012006
Published: March 1, 2025
Abstract
The
project
focuses
on
analyzing
the
activity
and
structure
of
microbial
communities
in
post-mining
coal
mine
heaps
located
along
Czech-Polish
border
to
identify
key
factors
essential
for
ecosystem
restoration.
research
encompasses
characterization
physiochemical
properties
heap
soil
substratum
a
detailed
assessment
community
biomass,
structure,
activity.
Previous
studies
reveal
significant
disparities
between
those
natural
ecosystems,
with
former
exhibiting
reduced
biomass
diversity.
These
variations
are
attributed
challenging
environmental
conditions
sites,
including
elevated
pH,
limited
nutrient
availability,
localized
high
salinity,
which
collectively
hinder
proliferation.
Additionally,
deficiencies
soils
adversely
affect
plant
growth,
complicating
establishment
stable
vegetation
cover
critical
recovery.
This
aims
deepen
our
understanding
intricate
relationships
plants
microbes
both
disturbed
ecosystems.
By
elucidating
these
interactions,
findings
can
provide
valuable
insights
into
restoring
ecological
balance
functionality
degraded
lands.
Ultimately,
study
has
potential
inform
sustainable
land
management
practices,
enhance
functions,
contribute
biodiversity
conservation
landscapes.
BMC Microbiology,
Journal Year:
2023,
Volume and Issue:
23(1)
Published: Sept. 7, 2023
Rapeseed
cake
is
an
important
agricultural
waste.
After
enzymatic
fermentation,
rapeseed
not
only
has
specific
microbial
diversity
but
also
contains
a
lot
of
fatty
acids,
organic
amino
acids
and
their
derivatives,
which
potential
value
as
high-quality
fertilizer.
However,
the
effects
fermented
on
tea
rhizosphere
microorganisms
soil
metabolites
have
been
reported.
In
this
study,
we
aimed
to
elucidate
effect
fertilizer
tree,
reveal
correlation
between
nutrients/metabolites.The
results
showed
that:
(1)
The
application
increased
contents
matter
(OM),
total
nitrogen
(TN),
phosphorus
(TP),
available
(AN),
(AP);
activities
urease
(S-UE),
catalase
(S-CAT),
acid
phosphatase
(S-ACP)
sucrase
(S-SC);
(2)
relative
abundance
beneficial
such
Chaetomium,
Inocybe,
Pseudoxanthomonas,
Pseudomonas,
Sphingomonas,
Stenotrophomonas;
(3)
sugar,
acid,
in
soil,
key
metabolic
pathways
were
concentrated
sugar
metabolisms;
(4)
promoted
metabolism
by
microorganisms;
enzymes
jointly
regulated
soil.Enzymatic
improved
nutrient
status
structure
was
for
enhancing
productivity
plantations.
These
findings
provide
new
insights
into
use
efficient
expand
its