Frontiers in Microbiology,
Journal Year:
2017,
Volume and Issue:
8
Published: July 20, 2017
Biofilms
are
dynamic
habitats
which
constantly
evolve
in
response
to
environmental
fluctuations
and
thereby
constitute
remarkable
survival
strategies
for
microorganisms.
The
modulation
of
biofilm
functional
properties
is
largely
governed
by
the
active
remodeling
their
three-dimensional
structure
involves
an
arsenal
microbial
self-produced
components
interconnected
mechanisms.
production
matrix
components,
spatial
reorganization
ecological
interactions,
generation
physiological
heterogeneity,
regulation
motility,
actives
enzymes
instance
some
processes
enabling
such
organization
plasticity.
In
this
contribution,
we
discussed
foundations
architectural
plasticity
as
adaptive
driver
biofilms
through
review
different
involved.
Moreover,
possibility
harness
characteristics
sculpt
attractive
approach
control
properties,
whether
beneficial
or
deleterious,
also
discussed.
Essays in Biochemistry,
Journal Year:
2016,
Volume and Issue:
60(4), P. 325 - 336
Published: Nov. 30, 2016
Biological
systems
exhibit
complex
behaviours
that
emerge
at
many
different
levels
of
organization.
These
span
the
regulation
gene
expression
within
single
cells
to
use
quorum
sensing
co-ordinate
action
entire
bacterial
colonies.
Synthetic
biology
aims
make
engineering
easier,
offering
an
opportunity
control
natural
and
develop
new
synthetic
with
useful
prescribed
behaviours.
However,
in
cases,
it
is
not
understood
how
individual
should
be
programmed
ensure
emergence
a
required
collective
behaviour.
Agent-based
modelling
tackle
this
problem,
framework
which
simulate
such
explore
cellular
design
rules.
In
article,
I
review
agent-based
models
biology,
outline
available
computational
tools,
provide
details
on
recently
engineered
biological
are
amenable
approach.
further
highlight
challenges
facing
methodology
some
potential
future
directions.
Microbial Biotechnology,
Journal Year:
2017,
Volume and Issue:
10(5), P. 1267 - 1274
Published: Aug. 14, 2017
Summary
Efficient
optimization
of
microbial
processes
is
a
critical
issue
for
achieving
number
sustainable
development
goals,
considering
the
impact
biotechnology
in
agrofood,
environment,
biopharmaceutical
and
chemical
industries.
Many
these
applications
require
scale‐up
after
proof
concept.
However,
behaviour
systems
remains
unpredictable
(at
least
partially)
when
shifting
from
laboratory‐scale
to
industrial
conditions.
The
need
robust
thus
highly
needed
this
context,
as
well
better
understanding
interactions
between
fluid
mechanics
cell
physiology.
For
that
purpose,
full
scale‐up/down
computational
framework
already
available.
This
links
dynamics
(
CFD
),
metabolic
flux
analysis
agent‐based
modelling
ABM
)
lifelines
heterogeneous
environment.
Ultimately,
can
be
used
design
scale‐down
simulators
and/or
metabolically
engineered
cells
able
cope
with
environmental
fluctuations
typically
found
large‐scale
bioreactors.
still
needs
some
refinements,
such
integration
gas–liquid
flows
,
taking
into
account
intrinsic
biological
noise
.
Nature Communications,
Journal Year:
2019,
Volume and Issue:
10(1)
Published: March 21, 2019
Selection
and
dispersal
are
ecological
processes
that
have
contrasting
roles
in
the
assembly
of
communities.
Variable
selection
diversifies
strong
homogenizes
them.
However,
we
do
not
know
whether
communities
directly
via
immigration
or
indirectly
weakening
across
habitats
due
to
physical
transfer
material,
e.g.,
water
mixing
aquatic
ecosystems.
Here
examine
how
a
simplified
synthetic
bacterial
metacommunity,
using
sequencing-independent
approach
based
on
flow
cytometry
mathematical
modeling.
We
show
metacommunity
immigration,
selection,
even
when
is
four
times
slower
than
growth.
This
finding
challenges
current
view
only
at
high
rates
explains
why
homogeneous
small
spatial
scales.
It
also
offers
benchmark
for
sequence-based
studies
natural
microbial
where
can
be
inferred
solely
by
neutral
models.
Frontiers in Microbiology,
Journal Year:
2017,
Volume and Issue:
8
Published: July 20, 2017
Biofilms
are
dynamic
habitats
which
constantly
evolve
in
response
to
environmental
fluctuations
and
thereby
constitute
remarkable
survival
strategies
for
microorganisms.
The
modulation
of
biofilm
functional
properties
is
largely
governed
by
the
active
remodeling
their
three-dimensional
structure
involves
an
arsenal
microbial
self-produced
components
interconnected
mechanisms.
production
matrix
components,
spatial
reorganization
ecological
interactions,
generation
physiological
heterogeneity,
regulation
motility,
actives
enzymes
instance
some
processes
enabling
such
organization
plasticity.
In
this
contribution,
we
discussed
foundations
architectural
plasticity
as
adaptive
driver
biofilms
through
review
different
involved.
Moreover,
possibility
harness
characteristics
sculpt
attractive
approach
control
properties,
whether
beneficial
or
deleterious,
also
discussed.
