Biotechnology for Biofuels,
Год журнала:
2021,
Номер
14(1)
Опубликована: Дек. 17, 2021
As
the
second
most
abundant
polysaccharide
in
nature,
hemicellulose
can
be
degraded
to
xylose
as
feedstock
for
bioconversion
fuels
and
chemicals.
To
enhance
conversion,
engineered
Saccharomyces
cerevisiae
with
metabolic
pathway
is
usually
adapted
carbon
source
laboratory.
However,
mechanism
under
adaptation
phenomena
of
strain
still
unclear.In
this
study,
xylose-utilizing
S.
was
constructed
used
study.
It
found
that
consumption
rate
increased
1.24-fold
incubation
yYST12
synthetic
complete-xylose
medium
compared
first
incubation.
The
study
figured
out
it
observed
at
single-cell
level
stagnation
time
utilization
reduced
after
microfluidic
device.
Such
transient
memory
metabolism
medium,
named
"xylose
memory",
strains
both
isomerase
reductase
xylitol
dehydrogenase
pathways.
In
further,
proteomic
acetylation
before
investigated,
revealed
H4K5
one
differential
sites
related
cerevisiae.
We
tested
8
genes
encoding
acetylase
or
deacetylase,
knockout
GCN5
HPA2
acetylases
enhanced
memory.The
behavior
successfully
induced
adaptation.
H4K5Ac
two
are
during
This
provides
valuable
insights
into
Frontiers in Systems Neuroscience,
Год журнала:
2022,
Номер
16
Опубликована: Март 24, 2022
Synthetic
biology
and
bioengineering
provide
the
opportunity
to
create
novel
embodied
cognitive
systems
(otherwise
known
as
minds)
in
a
very
wide
variety
of
chimeric
architectures
combining
evolved
designed
material
software.
These
advances
are
disrupting
familiar
concepts
philosophy
mind,
require
new
ways
thinking
about
comparing
truly
diverse
intelligences,
whose
composition
origin
not
like
any
available
natural
model
species.
In
this
Perspective,
I
introduce
TAME-Technological
Approach
Mind
Everywhere-a
framework
for
understanding
manipulating
cognition
unconventional
substrates.
TAME
formalizes
non-binary
(continuous),
empirically-based
approach
strongly
agency.
provides
way
think
animal
sentience
an
instance
collective
intelligence
cell
groups,
arising
from
dynamics
that
manifest
similar
numerous
other
When
applied
regenerating/developmental
systems,
suggests
perspective
on
morphogenesis
example
basal
cognition.
The
deep
symmetry
between
problem-solving
anatomical,
physiological,
transcriptional,
3D
(traditional
behavioral)
spaces
drives
specific
hypotheses
by
which
capacities
can
increase
during
evolution.
An
important
medium
exploited
evolution
joining
active
subunits
into
greater
agents
is
developmental
bioelectricity,
implemented
pre-neural
use
ion
channels
gap
junctions
scale
up
cell-level
feedback
loops
anatomical
homeostasis.
This
architecture
multi-scale
competency
biological
has
implications
plasticity
bodies
minds,
greatly
potentiating
evolvability.
Considering
classical
recent
data
perspectives
computational
science,
evolutionary
biology,
cognition,
reveals
rich
research
program
with
many
regenerative
medicine,
artificial
intelligence.
Cells,
Год журнала:
2019,
Номер
8(4), С. 339 - 339
Опубликована: Апрель 10, 2019
Cellular
adaptation
to
environmental
stress
relies
on
a
wide
range
of
tightly
controlled
regulatory
mechanisms,
including
transcription.
Changes
in
chromatin
structure
and
organization
accompany
the
transcriptional
response
stress,
some
cases,
can
impart
memory
exposure
subsequent
generations
through
mechanisms
epigenetic
inheritance.
In
budding
yeast
Saccharomyces
cerevisiae,
histone
post-translational
modifications,
particular
methylation,
have
been
shown
confer
conditions
mitotic
divisions.
Recent
evidence
from
Caenorhabditis
elegans
also
implicates
methylation
transgenerational
inheritance
responses,
suggesting
more
widely
conserved
role
memory.
Biochemical and Biophysical Research Communications,
Год журнала:
2024,
Номер
731, С. 150396 - 150396
Опубликована: Июль 14, 2024
Individual
cells
have
numerous
competencies
in
physiological
and
metabolic
spaces.
However,
multicellular
collectives
can
reliably
navigate
anatomical
morphospace
towards
much
larger,
reliable
endpoints.
Understanding
the
robustness
control
properties
of
this
process
is
critical
for
evolutionary
developmental
biology,
bioengineering,
regenerative
medicine.
One
mechanism
that
has
been
proposed
enabling
individual
to
coordinate
toward
specific
morphological
outcomes
sharing
stress
(where
a
parameter
reflects
current
amount
error
context
homeostatic
loop).
Here,
we
construct
analyze
multiscale
agent-based
model
morphogenesis
which
quantitatively
examine
impact
on
ability
reach
target
morphology.
We
found
improves
morphogenetic
efficiency
collectives;
populations
with
reached
targets
faster.
Moreover,
influenced
future
fate
distant
multi-cellular
collective,
enhancing
cells'
movement
their
radius
influence,
consistent
hypothesis
works
increase
cohesiveness
collectives.
During
development,
goal
states
could
not
be
inferred
from
observation
states,
revealing
limitations
knowledge
goals
by
an
extern
observer
outside
system
itself.
Taken
together,
our
analyses
support
important
role
natural
engineered
systems
seek
robust
large-scale
behaviors
emerge
activity
competent
components.
Frontiers in Immunology,
Год журнала:
2021,
Номер
12
Опубликована: Март 29, 2021
Innate
immune
memory
was
first
described
for
monocytes
and
other
myeloid
cells.
This
is
designated
Immune
Training
,
in
which
the
host
animals
that
had
experienced
pathogen
infection
earlier
acquire
improved
resistance
to
a
second
infection.
mediated
by
an
epigenetic
mechanism
traced
transcriptional
conserved
throughout
evolution
has
been
selected
ability
mount
adaptive
response
shifting
environments.
Accumulating
evidence
shows
not
only
peripheral
cells
but
hematopoietic
stem/progenitor
(HSCs/HSPCs)
can
upon
exposure.
Systemic
causes
HSCs
exit
from
quiescence
facilitate
myeloid-biased
differentiation
leads
efficient
defense.
sequence
of
events
common
HSC
generation,
triggered
different
stimuli.
Recent
studies
show
pathogens
stimuli
such
as
metabolic
stress
generate
HSCs.
review
summarizes
recent
publications
relevant
memory.
We
discuss
current
understanding
initial
sensors,
soluble
mediators/cytokines
involved
formation,
including
Type
I
II
interferons
along
with
future
implications.
Nucleic Acids Research,
Год журнала:
2020,
Номер
48(10), С. 5407 - 5425
Опубликована: Апрель 18, 2020
Abstract
Adjusting
DNA
structure
via
epigenetic
modifications,
and
altering
polyadenylation
(pA)
sites
at
which
precursor
mRNA
is
cleaved
polyadenylated,
allows
cells
to
quickly
respond
environmental
stress.
Since
occurs
co-transcriptionally,
specific
patterns
of
nucleosome
positioning
chromatin
modifications
correlate
with
pA
site
usage,
factors
potentially
affect
alternative
(APA).
We
report
that
the
histone
H3K4
methyltransferase
Set1,
H3K36
Set2,
control
choice
in
Saccharomyces
cerevisiae,
a
powerful
model
for
studying
evolutionarily
conserved
eukaryotic
processes.
Deletion
SET1
or
SET2
causes
an
increase
serine-2
phosphorylation
within
C-terminal
domain
RNA
polymerase
II
(RNAP
II)
recruitment
cleavage/polyadenylation
complex,
both
could
cause
observed
switch
usage.
Chemical
inhibition
TOR
signaling,
nutritional
stress,
results
Set1-
Set2-dependent
APA.
In
addition,
Set1
Set2
decrease
efficiency
using
single
sites,
occupancy
around
sites.
Overall,
our
study
suggests
methyltransferases
regulate
APA
induced
by
RNAP
Ser2,
3′
end
processing
machinery
vicinity
Epigenomes,
Год журнала:
2022,
Номер
7(1), С. 1 - 1
Опубликована: Дек. 26, 2022
Organisms
adapt
to
different
environments
by
selection
of
the
most
suitable
phenotypes
from
standing
genetic
variation
or
phenotypic
plasticity,
ability
single
genotypes
produce
in
environments.
Because
near
identity,
asexually
reproducing
populations
are
particularly
for
investigation
potential
and
molecular
underpinning
latter
alternative
depth.
Recent
analyses
on
whole-genome
scale
differently
adapted
clonal
animals
plants
demonstrated
that
epigenetic
mechanisms
such
as
DNA
methylation,
histone
modifications
non-coding
RNAs
among
pathways
supporting
plasticity
is
used
stably
Case
studies
revealed
habitat-specific
fingerprints
were
maintained
over
subsequent
years
pointing
at
existence
ecotypes.
Environmentally
induced
epimutations
corresponding
gene
expression
changes
provide
an
ideal
means
fast
directional
adaptation
changing
new
conditions,
because
they
can
synchronously
alter
many
population
members.
microorganisms
inclusive
human
pathogens
also
exploit
epigenetically
mediated
environmental
adaptation,
this
phenomenon
considered
a
universal
biological
principle.
The
production
same
sequence
response
cues
provides
mechanistic
explanation
“general-purpose
genotype
hypothesis”
“genetic
paradox
invasions”.
