Environmental Research,
Journal Year:
2024,
Volume and Issue:
259, P. 119439 - 119439
Published: June 18, 2024
Increasing
amounts
of
wastewater
is
the
most
pervasive
and
challenging
environmental
problem
globally.
Conventional
treatment
methods
are
costly
entail
huge
energy
carbon
consumption
greenhouse
gas
emissions.
Owing
to
their
unique
ability
capturing
resource
recovery,
microalgae-microbiome
based
a
potential
approach
widely
used
for
carbon-neutral
treatment.
Microalgae-bacteria
synergy
(i.e.,
functionally
beneficial
microbial
synthetic
communities)
performs
better
enhances
carbon-sequestration
nutrient
recovery
from
plants.
This
review
presents
comprehensive
information
regarding
as
sustainable
agent
discusses
synergistic
approaches
effective
removal.
Moreover,
this
discusses,
role
omics-biology
Insilco
in
unravelling
understanding
algae-microbe
synergism
response
toward
Finally,
it
various
microbiome
engineering
developing
microalgae-bacteria
partners
sequestration
wastewater,
summarizes
future
research
perspectives
on
bioremediation.
Chemical Reviews,
Journal Year:
2025,
Volume and Issue:
unknown
Published: Jan. 22, 2025
Throughout
history,
we
have
looked
to
nature
discover
and
copy
pharmaceutical
solutions
prevent
heal
diseases.
Due
the
advances
in
metabolic
engineering
production
of
proteins
different
host
cells,
moved
from
mimicking
delicate
cells
proteins.
We
can
now
produce
novel
drug
molecules,
which
are
fusions
small
chemical
drugs
Currently
at
brink
yet
another
step
venture
beyond
nature's
border
with
use
unnatural
amino
acids
manufacturing
without
living
using
cell-free
systems.
In
this
review,
summarize
progress
limitations
last
decades
development
protein
development,
also
discuss
possible
future
directions
field.
mBio,
Journal Year:
2025,
Volume and Issue:
unknown
Published: Feb. 6, 2025
ABSTRACT
No
organism
is
an
island:
organisms
of
varying
taxonomic
complexity,
including
genetic
variants
a
single
species,
can
coexist
in
particular
niches,
cooperating
for
survival
while
simultaneously
competing
environmental
resources.
In
recent
years,
synthetic
biology
strategies
have
witnessed
surge
efforts
focused
on
creating
artificial
microbial
communities
to
tackle
pressing
questions
about
the
complexity
natural
systems
and
interactions
that
underpin
them.
These
engineered
ecosystems
depend
number
nature
their
members,
allowing
complex
cell
communication
designs
recreate
create
diverse
interest.
Due
its
experimental
simplicity,
budding
yeast
Saccharomyces
cerevisiae
has
been
harnessed
establish
mixture
varied
populations
with
potential
explore
ecology,
metabolic
bioprocessing,
biosensing,
pattern
formation.
Indeed,
enable
advanced
molecule
detection
dynamics
logic
operations.
Here,
we
present
concise
overview
state-of-the-art,
highlighting
examples
exploit
optogenetics
manipulate,
through
light
stimulation,
key
phenotypes
at
community
level,
unprecedented
spatial
temporal
regulation.
Hence,
envision
bright
future
where
application
optogenetic
approaches
(optoecology)
illuminates
intricate
drives
innovations
engineering
strategies.
Journal of Biological Engineering,
Journal Year:
2025,
Volume and Issue:
19(1)
Published: Feb. 20, 2025
Bioconversion
of
methanol
derived
from
CO2
reduction
into
value-added
chemicals
provides
a
unique
approach
for
mitigating
global
warming
and
reducing
fossil
fuels
dependence.
Production
3-hydroxypropionic
acid
(3-HP),
key
building
block
the
development
biobased
products
such
as
acrylates
1,3-propanediol,
has
been
successfully
achieved
using
sole
carbon
energy
source
in
methylotrophic
yeast
Komagataella
phaffii
(syn.
Pichia
pastoris).
However,
challenges
remain
meeting
commercially
relevant
concentrations,
yields
productivities
3-HP,
prompting
further
strain
optimization.
In
present
study,
we
have
combined
metabolic
engineering
strategies
aiming
at
increasing
precursors
supply
redirecting
flux
towards
3-HP
production.
A
combinatorial
strategy
targeting
export
was
applied
to
original
producing
K.
harboring
synthetic
β-alanine
pathway
mutated
NADP-dependent
formate
dehydrogenase
Pseudomonas
sp.
101
(PseFDH(V9)).
To
do
so,
several
genes
encoding
enzymes
catalyzing
reactions
immediately
upstream
were
overexpressed
enhance
availability.
only
overexpression
pyruvate
carboxylase
PYC2
gene
significantly
increased
yield
on
biomass
(YP/X)
small-scale
cultivations.
Co-overexpression
lactate
permeases
ESBP6
JEN1
led
55%
improvement
titer
product
deep-well
plate
cultures
compared
reference
strain,
mostly
due
Esbp6
activity,
proving
its
effectiveness
transporter.
Deletion
native
FDH1
did
not
increase
entering
assimilatory
pathway.
Instead,
knockout
strains
showed
severe
growth
defects
toxic
intermediates
accumulation.
Co-expression
PseFDH(V9)
these
failed
compensate
loss
FDH.
The
combining
PYC2,
ESBP6,
tested
fed-batch
pH
5,
achieving
concentration
27.0
g
l-
1,
with
0.19
g-
volumetric
productivity
0.56
1
h-
feeding
phase
These
results
represent
42%
final
over
20%
3-HP-producing
strain.
Furthermore,
bioreactor-scale
cultivations
3.5
revealed
robustness
overexpressing
monocarboxylate
transporters.
Our
point
out
potential
transporters
efficiently
drive
phaffii,
leading
higher
titers,
yields,
productivities,
even
lower
conditions.
ACS Synthetic Biology,
Journal Year:
2024,
Volume and Issue:
13(7), P. 2227 - 2237
Published: July 8, 2024
The
inevitable
transition
from
petrochemical
production
processes
to
renewable
alternatives
has
sparked
the
emergence
of
biofoundries
in
recent
years.
Manual
engineering
microbes
will
not
be
sufficient
meet
ever-increasing
demand
for
novel
producer
strains.
Here
we
describe
AutoBioTech
platform,
a
fully
automated
laboratory
system
with
14
devices
perform
operations
strain
construction
without
human
interaction.
Using
modular
workflows,
this
platform
enables
transformations
Escherichia
coli
plasmids
assembled
via
cloning.
A
CRISPR/Cas9
toolbox
compatible
existing
cloning
frameworks
allows
and
flexible
genome
editing
E.
coli.
In
addition,
workflows
have
been
established
transformation
Gram-positive
model
organism
Corynebacterium
glutamicum
by
conjugation
electroporation,
latter
proving
more
robust
technique.
Overall,
excels
at
versatility
due
modularity
seamless
transitions
between
modules.
This
accelerate
Gram-negative
bacteria.
Metabolic Engineering,
Journal Year:
2024,
Volume and Issue:
85, P. 61 - 72
Published: July 20, 2024
Advances
in
synthetic
biology
and
artificial
intelligence
(AI)
have
provided
new
opportunities
for
modern
biotechnology.
High-performance
cell
factories,
the
backbone
of
industrial
biotechnology,
are
ultimately
responsible
determining
whether
a
bio-based
product
succeeds
or
fails
fierce
competition
with
petroleum-based
products.
To
date,
one
greatest
challenges
is
creation
high-performance
factories
consistent
efficient
manner.
As
so-called
white-box
models,
numerous
metabolic
network
models
been
developed
used
computational
strain
design.
Moreover,
great
progress
has
made
AI-powered
engineering
recent
years.
Both
approaches
advantages
disadvantages.
Therefore,
deep
integration
AI
crucial
construction
superior
higher
titres,
yields
production
rates.
The
detailed
applications
latest
advanced
design
summarized
this
review.
Additionally,
discussed.
It
anticipated
that
mechanistic
powered
by
will
pave
way
powerful
chassis
strains
coming
Nucleic Acids Research,
Journal Year:
2024,
Volume and Issue:
52(6), P. e30 - e30
Published: Feb. 13, 2024
Abstract
The
CRISPR/Cas
system
has
emerged
as
a
powerful
tool
for
genome
editing
in
metabolic
engineering
and
human
gene
therapy.
However,
locating
the
optimal
site
on
chromosome
to
integrate
heterologous
genes
using
remains
an
open
question.
Selecting
suitable
integration
involves
considering
multiple
complex
criteria,
including
factors
related
CRISPR/Cas-mediated
integration,
genetic
stability,
expression.
Consequently,
identifying
such
sites
specific
or
different
chromosomal
locations
typically
requires
extensive
characterization
efforts.
To
address
these
challenges,
we
have
developed
CRISPR-COPIES,
COmputational
Pipeline
Identification
of
CRISPR/Cas-facilitated
intEgration
Sites.
This
leverages
ScaNN,
state-of-the-art
model
embedding-based
nearest
neighbor
search
fast
accurate
off-target
search,
can
identify
genome-wide
intergenic
most
bacterial
fungal
genomes
within
minutes.
As
proof
concept,
utilized
CRISPR-COPIES
characterize
neutral
three
diverse
species:
Saccharomyces
cerevisiae,
Cupriavidus
necator,
HEK293T
cells.
In
addition,
user-friendly
web
interface
(https://biofoundry.web.illinois.edu/copies/).
We
anticipate
that
will
serve
valuable
targeted
DNA
aid
synthetic
biology
toolkits,
enable
rapid
strain
construction
produce
biochemicals,
support
cell
therapy
applications.
ACS Synthetic Biology,
Journal Year:
2023,
Volume and Issue:
12(6), P. 1579 - 1582
Published: June 16, 2023
Synthetic
biology
(SynBio)
has
attracted
like
no
other
recent
development
the
attention
not
only
of
Life
Science
researchers
and
engineers
but
also
intellectuals,
technology
think-tanks,
private
public
investors.
This
is
largely
due
to
its
promise
propel
biotechnology
beyond
traditional
realms
in
medicine,
agriculture,
environment
toward
new
territories
historically
dominated
by
chemical
manufacturing
industries─but
now
claimed
be
amenable
complete
biologization.
For
this
happen,
it
crucial
for
field
remain
true
foundational
engineering
drive,
which
relies
on
mathematics
quantitative
tools
construct
practical
solutions
real-world
problems.
article
highlights
several
SynBio
themes
that,
our
view,
come
with
somewhat
precarious
promises
that
need
tackled.
First,
must
critically
examine
whether
enough
basic
information
available
enable
design
or
redesign
life
processes
turn
from
a
descriptive
science
into
prescriptive
one.
Second,
unlike
circuit
boards,
cells
are
built
soft
matter
possess
inherent
abilities
mutate
evolve,
even
without
external
cues.
Third,
cannot
presented
as
one
technical
solution
many
grave
world
problems
so
avoid
exaggerated
claims
hype.
Finally,
should
pay
heed
sensitivities
involve
social
growth,
thus
change
narrative
sheer
domination
living
conversation
win-win
partnership.
