The
microbiome
of
flowers
(anthosphere)
is
an
understudied
compartment
the
plant
microbiome.
Within
flower,
petals
represent
a
heterogeneous
environment
for
microbes
in
terms
resources
and
environmental
stress.
Yet,
little
known
drivers
structure
function
epiphytic
microbial
community
at
within-petal
scale.
We
characterized
petal
two
co-flowering
plants
that
differ
pattern
ultraviolet
(UV)
absorption
along
their
petals.
Bacterial
communities
were
similar
between
hosts,
with
only
rare
phylogenetically
distant
species
contributing
to
differences.
epiphyte
was
highly
culturable
(75%
families)
lending
confidence
spatially
explicit
isolation
characterization
bacteria.
In
one
host,
UV
length,
these,
there
negative
relationship
growth
rate
position
on
petal,
as
well
lower
tolerance
strains
isolated
from
UV-absorbing
base
than
reflecting
tip.
A
not
seen
second
host
whose
had
uniform
patterning
length.
Across
strains,
variation
carbon
usage
chemical
followed
common
phylogenetic
patterns.
This
work
highlights
value
explorations
bacteria
anthosphere.
Science,
Год журнала:
2023,
Номер
381(6655), С. 343 - 348
Опубликована: Июль 20, 2023
Understanding
the
mechanisms
that
maintain
microbial
biodiversity
is
a
critical
aspiration
in
ecology.
Past
work
on
coexistence
has
largely
focused
species
pairs,
but
it
unclear
whether
pairwise
isolation
required
for
multispecies
community.
To
address
this
question,
we
conducted
hundreds
of
competition
experiments
among
stably
coexisting
members
12
different
enrichment
communities
vitro.
determine
outcomes
these
experiments,
developed
an
automated
image
analysis
pipeline
to
quantify
abundances.
We
found
competitive
exclusion
was
most
common
outcome,
and
strongly
hierarchical
transitive.
Because
many
coexist
within
stable
community
fail
co-culture
under
identical
conditions,
concluded
emergent
phenomenon.
This
highlights
importance
context
understanding
origins
complex
ecosystems.
Cell Host & Microbe,
Год журнала:
2024,
Номер
32(4), С. 543 - 556.e6
Опубликована: Март 12, 2024
Plant
roots
are
functionally
heterogeneous
in
cellular
architecture,
transcriptome
profile,
metabolic
state,
and
microbial
immunity.
We
hypothesized
that
axial
differentiation
may
also
impact
spatial
colonization
by
root
microbiota
along
the
axis.
developed
two
growth
systems,
ArtSoil
CD-Rhizotron,
to
grow
then
dissect
Arabidopsis
thaliana
into
three
segments.
demonstrate
distinct
endospheric
rhizosphere
bacterial
communities
colonize
segments,
supporting
hypothesis
of
Root
metabolite
profiling
each
segment
reveals
differential
enrichment
specificity.
Bioinformatic
analyses
GUS
histochemistry
indicate
microbe-induced
accumulation
SWEET2,
4,
12
sugar
uniporters.
Profiling
segments
from
sweet
mutants
shows
altered
profiles
reorganization
microbiota.
This
work
interdependency
between
metabolites
contribution
SWEETs
diversity
stability
ecosystem.
A
major
open
question
in
microbial
community
ecology
is
whether
we
can
predict
how
the
components
of
a
diet
collectively
determine
taxonomic
composition
communities.
Motivated
by
this
challenge,
investigate
communities
assembled
pairs
nutrients
be
predicted
from
those
every
single
nutrient
alone.
We
find
that
although
null,
naturally
additive
model
generally
predicts
well
family-level
composition,
there
exist
systematic
deviations
predictions
reflect
generic
patterns
dominance
at
family
level.
Pairs
more-similar
(e.g.
two
sugars)
are
on
average
more
than
dissimilar
(one
sugar–one
organic
acid).
Furthermore,
sugar–acid
similar
to
sugar
acid
community,
which
may
explained
asymmetries
benefits.
Overall,
our
results
suggest
regularities
interact
help
responses
dietary
changes.
Proceedings of the National Academy of Sciences,
Год журнала:
2022,
Номер
119(6)
Опубликована: Фев. 1, 2022
Significance
In
the
microbial
world,
it
is
common
for
previously
isolated
communities
to
come
in
contact
with
one
another.
This
phenomenon
known
as
community
coalescence.
Despite
being
a
key
process
assembly
of
communities,
little
about
mechanisms
that
determine
its
outcomes.
Here
we
present
an
experimental
system
allowed
us
study
over
100
coalescence
events
between
segregated
microbiomes.
Our
results,
predicted
by
mathematical
model,
provide
direct
evidence
ecological
coselection:
situation
where
members
recruit
another
during
combined
and
theoretical
framework
represents
powerful
tool
predict
outcomes
interrogate
mLife,
Год журнала:
2022,
Номер
1(4), С. 382 - 398
Опубликована: Ноя. 3, 2022
Although
the
accomplishments
of
microbiome
engineering
highlight
its
significance
for
targeted
manipulation
microbial
communities,
knowledge
and
technical
gaps
still
limit
applications
in
biotechnology,
especially
environmental
use.
Addressing
challenges
refractory
pollutants
fluctuating
conditions
requires
an
adequate
understanding
theoretical
achievements
practical
engineering.
Here,
we
review
recent
cutting-edge
studies
on
strategies
their
classical
bioremediation.
Moreover,
a
framework
is
summarized
combining
both
top-down
bottom-up
approaches
toward
improved
applications.
A
strategy
to
engineer
microbiomes
use,
which
avoids
build-up
toxic
intermediates
that
pose
risk
human
health,
suggested.
We
anticipate
highlighted
will
be
beneficial
address
difficult
such
as
degrading
multiple
sustain
performance
engineered
situ
with
indigenous
microorganisms
under
conditions.
Scientific Reports,
Год журнала:
2022,
Номер
12(1)
Опубликована: Дек. 31, 2022
Non-pairwise
interactions,
or
higher-order
interactions
(HOIs),
in
microbial
communities
have
been
described
as
significant
drivers
of
emergent
features
microbiomes.
Yet,
the
re-organization
between
pairwise
cultures
and
larger
remains
largely
unexplored
from
a
molecular
perspective
but
is
central
to
our
understanding
further
manipulation
communities.
Here,
we
used
bottom-up
approach
investigate
interaction
mechanisms
up
4-species
simple
microbiome
(Hafnia
alvei,
Geotrichum
candidum,
Pencillium
camemberti
Escherichia
coli).
Specifically,
characterized
landscape
for
each
species
combination
involving
E.
coli
by
identifying
coli's
interaction-associated
mutants
using
an
RB-TnSeq-based
assay.
We
observed
deep
reorganization
mutants,
with
very
few
2-species
conserved
all
way
community
emergence
multiple
HOIs.
quantitative
genetics
strategy
decipher
how
were
quantitatively
higher
compositions.
Epistasis-based
analysis
revealed
that,
that
are
at
levels
complexity,
82%
follow
additive
pattern.
Altogether,
demonstrate
complex
architecture
even
within
microbiome,
provide
mechanistic
explanation
