The ISME Journal,
Год журнала:
2021,
Номер
15(9), С. 2708 - 2722
Опубликована: Март 26, 2021
Abstract
The
full
potential
of
managing
microbial
communities
to
support
plant
health
is
yet-unrealized,
in
part
because
it
remains
difficult
ascertain
which
members
are
most
important
for
the
plant.
However,
microbes
that
consistently
associate
with
a
species
across
varied
field
conditions
and
over
development
likely
engage
host
or
environment.
Here,
we
applied
abundance-occupancy
concepts
from
macroecology
quantify
core
membership
bacterial/archaeal
fungal
rhizosphere
common
bean
(Phaseolus
vulgaris).
Our
study
investigated
microbiome
persisted
multiple
dimensions
agriculture,
including
major
U.S.
growing
regions
(Michigan,
Nebraska,
Colorado,
Washington),
development,
annual
plantings,
divergent
genotypes,
also
included
re-analysis
public
data
beans
grown
Colombia.
We
found
48
bacterial
taxa
were
detected
all
samples,
inclusive
datasets
dimensions.
This
suggests
reliable
enrichment
these
environment
time-independence
their
association
More
generally,
breadth
ecologically
this
work
(space,
time,
genotype,
management)
provides
an
example
how
systematically
identify
stably-associated
members,
can
be
other
hosts
systems.
Nature Communications,
Год журнала:
2020,
Номер
11(1)
Опубликована: Сен. 18, 2020
Abstract
Unraveling
the
drivers
controlling
community
assembly
is
a
central
issue
in
ecology.
Although
it
generally
accepted
that
selection,
dispersal,
diversification
and
drift
are
major
processes,
defining
their
relative
importance
very
challenging.
Here,
we
present
framework
to
quantitatively
infer
mechanisms
by
phylogenetic
bin-based
null
model
analysis
(iCAMP).
iCAMP
shows
high
accuracy
(0.93–0.99),
precision
(0.80–0.94),
sensitivity
(0.82–0.94),
specificity
(0.95–0.98)
on
simulated
communities,
which
10–160%
higher
than
those
from
entire
community-based
approach.
Application
of
grassland
microbial
communities
response
experimental
warming
reveals
dominant
roles
homogeneous
selection
(38%)
‘drift’
(59%).
Interestingly,
decreases
over
time,
enhances
primarily
imposed
Bacillales.
In
addition,
has
correlations
with
drought
plant
productivity
under
control.
provides
an
effective
robust
tool
quantify
should
also
be
useful
for
animal
The ISME Journal,
Год журнала:
2021,
Номер
16(1), С. 296 - 306
Опубликована: Июль 28, 2021
Abstract
Microbial
communities
play
important
roles
in
all
ecosystems
and
yet
a
comprehensive
understanding
of
the
ecological
processes
governing
assembly
these
is
missing.
To
address
role
biotic
interactions
between
microorganisms
for
functioning
soil
microbiota,
we
used
top-down
manipulation
approach
based
on
removal
various
populations
natural
microbial
community.
We
hypothesized
that
certain
groups
will
strongly
affect
relative
fitness
many
others,
therefore
unraveling
contribution
shaping
microbiome.
Here
show
39%
dominant
bacterial
taxa
across
treatments
were
subjected
to
competitive
during
recolonization,
highlighting
importance
soil.
Moreover,
our
allowed
identification
community
rule
as
exemplified
by
exclusion
members
Bacillales
Proteobacteriales.
Modified
resulted
greater
changes
activities
related
N-
than
C-cycling.
Our
can
provide
new
promising
avenue
study
complex
well
links
composition
ecosystem
function.
Global Change Biology,
Год журнала:
2021,
Номер
27(16), С. 3939 - 3950
Опубликована: Май 16, 2021
Abstract
Anthropogenic
nitrogen
(N)
input
is
known
to
alter
plant
and
microbial
α‐diversity,
but
how
N
enrichment
influences
β‐diversity
of
communities
remains
poorly
understood.
Using
a
long‐term
multilevel
addition
experiment
in
temperate
steppe,
we
show
that
plant,
soil
bacterial
fungal
exhibited
different
responses
their
input.
Plant
decreased
linearly
as
increased,
result
increased
directional
environmental
filtering,
where
properties
largely
explained
variation
β‐diversity.
Soil
first
then
with
increasing
input,
which
was
best
by
corresponding
changes
heterogeneity.
β‐diversity,
however,
remained
unchanged
across
the
gradient,
properties,
heterogeneity
together
explaining
an
insignificant
fraction
reflecting
importance
stochastic
community
assembly.
Our
study
demonstrates
divergent
effect
on
assembly
communities,
emphasizing
need
examine
closely
associated
fundamental
components
(i.e.,
plants
microorganisms)
ecosystems
gain
more
complete
understanding
ecological
consequences
anthropogenic
enrichment.
Frontiers in Microbiology,
Год журнала:
2021,
Номер
12
Опубликована: Май 14, 2021
Advances
in
null-model
approaches
have
resulted
a
deeper
understanding
of
community
assembly
mechanisms
for
variety
complex
microbiomes.
One
under-explored
application
is
communities
from
the
built-environment,
especially
during
process
disturbances.
Anaerobic
digestion
biological
wastewater
treatment
often
underpinned
by
retaining
millions
active
granular
biofilm
aggregates.
Flotation
granules
major
problem,
resulting
failure.
aggregates
were
sampled
three
identical
bioreactors
treating
dairy
wastewater.
Microbiome
structure
was
analysed
using
qPCR
and
16S
rRNA
gene
amplicon
sequencing
DNA
cDNA.
A
comprehensive
approach
quantified
floating
settled
communities.
Significant
differences
diversity
observed
between
granules,
particular,
we
highlight
changing
abundances
Methanosaeta
Lactococcus
.
Both
stochastic
deterministic
processes
important
assembly.
Homogeneous
selection
primary
mechanism
all
categories,
but
dispersal
also
contributed.
The
lottery
model
used
to
identify
clade-level
competition
driving
Lottery
“winners”
identified
with
different
winners
groups.
Some
groups
changed
their
winner
status
when
flotation
occurred.
Spirochaetaceae
,
example,
only
biomass
(cDNA-level)
lost
its
flotation.
Alternatively,
Arcobacter
butzerli
gained
This
analysis
provides
changes
that
occur
instabilities
which
may
be
washed
out—an
consideration
control.
