Plants,
Journal Year:
2025,
Volume and Issue:
14(5), P. 780 - 780
Published: March 4, 2025
Living
organisms
are
constantly
exposed
to
various
DNA
damaging
agents.
While
the
mechanisms
of
damage
and
repair
well
understood,
impact
these
agents
on
RNA
secondary
structure
subsequent
function
remains
elusive.
In
this
study,
we
explore
effects
reagent
methyl
methanesulfonate
(MMS)
arabidopsis
gene
expression
using
dimethyl
sulfate
(DMS)
mutational
profiling
with
sequencing
(DMS-MaPseq)
method.
Our
analyses
reveal
that
changes
in
transcriptional
levels
mRNA
key
factors
response
MMS
treatment
leads
up-regulation
RBOHs
(respiratory
burst
oxidase
homologues)
alteration
GSTF9
GSTF10,
thereby
enhancing
translation
efficiency.
Redox
homeostasis
manipulated
by
GSTFs
plays
a
crucial
role
MMS-induced
primary
root
growth
inhibition.
conclusion,
our
findings
shed
light
potential
translation,
which
provide
new
insight
understand
mechanism
damage.
iMeta,
Journal Year:
2025,
Volume and Issue:
unknown
Published: Feb. 17, 2025
Abstract
The
rapid
growth
of
microbiome
research
has
generated
an
unprecedented
amount
multi‐omics
data,
presenting
challenges
in
data
analysis
and
visualization.
To
address
these
issues,
we
present
MicrobiomeStatPlots,
a
comprehensive
platform
offering
streamlined,
reproducible
tools
for
This
integrates
essential
bioinformatics
workflows
with
pipelines
provides
82
distinct
visualization
cases
interpreting
datasets.
By
incorporating
basic
tutorials
advanced
R‐based
strategies,
MicrobiomeStatPlots
enhances
accessibility
usability
researchers.
Users
can
customize
plots,
contribute
to
the
platform's
expansion,
access
wealth
knowledge
freely
on
GitHub
(
https://github.com/YongxinLiu/MicrobiomeStatPlot
).
Future
plans
include
extending
support
metabolomics,
viromics,
metatranscriptomics,
along
seamless
integration
into
omics
workflows.
bridges
gaps
visualization,
paving
way
more
efficient,
impactful
research.
Phytomedicine,
Journal Year:
2025,
Volume and Issue:
138, P. 156406 - 156406
Published: Jan. 24, 2025
Although
recent
progress
provides
mechanistic
insights
into
diabetic
nephropathy
(DN),
effective
treatments
remain
scarce.
DN,
characterized
by
proteinuria
and
a
progressive
decline
in
renal
function,
primarily
arises
from
podocyte
injury,
which
impairs
the
glomerular
filtration
barrier.
Wogonoside,
bioactive
compound
traditional
Chinese
herb
Scutellaria
baicalensis,
has
not
been
explored
for
its
role
DN.
This
study
aimed
to
investigate
therapeutic
effects
of
wogonoside
on
injury
DN
molecular
mechanisms.
The
were
examined
using
HFD/STZ-induced
mouse
models
high
glucose
(HG)-induced
MPC-5
cells.
Oxidative
stress
inflammation
markers
analyzed
via
Western
blot
RT-qPCR.
Wogonoside
targets
identified
through
DARTS-MS
validated
SPR,
docking,
alanine
scanning,
CETSA.
RNA-Seq
analysis
was
employed
identify
downstream
targets,
p65-MMP28
axis
p65
knockdown
overexpression
studies.
regulatory
effect
Mmp28
confirmed
dual-luciferase
reporter
assays
ChIP-qPCR.
treatment
significantly
reduced
oxidative
vivo
vitro.
Mechanistic
studies
as
direct
target
wogonoside,
with
SPR
confirming
strong
binding
affinity
(KD
=
25.05
μM).
Molecular
docking
scanning
LYS221
critical
site,
further
supported
CETSA
K221A
mutant.
revealed
effector
involved
HG-induced
injury.
Functional
demonstrated
that
wogonoside's
protective
antioxidant
inflammatory
pathways
are
mediated
axis.
Dual-luciferase
regulates
transcription,
ChIP-qPCR
promoter
binding.
highlights
promising
candidate
targeting
NF-κB
signaling
These
findings
provide
novel
potential
mechanisms,
paving
way
development
intervention.
International Journal of Molecular Sciences,
Journal Year:
2025,
Volume and Issue:
26(3), P. 919 - 919
Published: Jan. 22, 2025
Colletotrichum
graminicola
is
the
causative
agent
of
both
maize
stem
rot
and
leaf
blight,
which
are
among
most
damaging
diseases
affecting
maize.
Carbohydrate-binding
modules
(CBMs)
protein
domains
that
lack
catalytic
activity
commonly
found
alongside
carbohydrate-hydrolyzing
enzymes
in
fungi.
A
comprehensive
examination
C.
TZ-3
genome
resulted
identification
83
CBM
(CgCBM)
genes,
characterized
by
distinct
gene
structures
motifs.
Subcellular
localization
analysis
revealed
majority
CgCBM
proteins
were
localized
extracellular
space.
Investigation
promoter
regions
genes
uncovered
a
variety
responsive
elements
associated
with
plant
hormones,
including
abscisic
acid
methyl
jasmonate
response
elements,
as
well
various
stress-related
for
drought,
cold,
defense,
other
stress
factors.
Gene
ontology
identified
primary
functions
being
linked
to
polysaccharide
metabolism
processes.
Furthermore,
exhibited
varying
responses
at
different
time
points
during
infection,
indicating
their
contribution
fungus–maize
interaction
potential
roles
fungal
pathogenic
process.
This
study
provides
essential
insights
into
CgCBMs,
establishing
crucial
foundation
further
exploration
mechanisms
pathogenicity.
Antioxidants,
Journal Year:
2025,
Volume and Issue:
14(2), P. 194 - 194
Published: Feb. 8, 2025
Environmental
stressors
such
as
nitrogen
and
phosphorus
play
a
critical
role
in
regulating
the
growth
physiological
functions
of
Litopenaeus
vannamei,
key
species
aquaculture.
This
study
investigates
effects
stress
on
shrimp
growth,
oxidative
stress,
tissue
damage,
molecular
mechanisms.
Exposure
to
increasing
concentrations
significantly
reduced
rates.
Oxidative
markers,
including
superoxide
dismutase
(SOD),
catalase
(CAT),
total
antioxidant
capacity
(T-AOC),
malondialdehyde
(MDA),
indicated
heightened
damage
under
both
conditions,
with
causing
more
severe
responses
than
stress.
Histopathological
analysis
revealed
substantial
gills
hepatopancreas,
organs
essential
for
respiration
metabolism.
Transcriptomic
identified
differentially
expressed
genes
(DEGs)
enriched
apoptosis,
lysosome,
sphingolipid
metabolism,
phagosome
pathways,
suggesting
shared
The
results
demonstrate
that
L.
vannamei
initiates
immune
cope
environmental
stressors,
but
adaptive
remains
limited.
These
findings
provide
foundation
understanding
tolerance
mechanisms
inform
future
strategies
breeding
high-resistance
strains
Insects,
Journal Year:
2025,
Volume and Issue:
16(2), P. 127 - 127
Published: Jan. 28, 2025
Heat
shock
proteins
(HSPs)
are
crucial
molecular
chaperones
that
help
organisms
maintain
protein
stability
under
stress
conditions.
As
a
major
stored-product
pest,
Rhyzopertha
dominica
(Fabricius)
faces
distinct
stresses
compared
to
field
insects,
primarily
due
the
specific
pest
control
methods
applied
during
grain
storage.
In
this
study,
total
of
53
HSP
genes
from
five
gene
families
(HSP90,
HSP70,
HSP60,
sHSP,
and
DnaJ)
were
identified
characterized
using
bioinformatics
methods.
Among
them,
DnaJ
was
largest
most
diverse
family
in
R.
dominica.
Transcriptome
sequencing
RT-qPCR
then
used
evaluate
expression
patterns
four
storage-related
stresses,
following
series
bioassays.
Extreme
high
temperature
strongest
inducer
expression,
with
12
showing
over
10-fold
increase.
Controlled
nitrogen
atmosphere
also
led
considerable
upregulation
genes,
especially
HSP70
family.
contrast,
phosphine
fumigation
K-Obiol
protectant
caused
very
limited
induction
which
might
have
been
less
severe
damage
by
chemical
physical
stresses.
Our
study
provides
theoretical
basis
for
further
research
on
functions
