Research Square (Research Square),
Journal Year:
2020,
Volume and Issue:
unknown
Published: Jan. 14, 2020
Abstract
Background:
Drought
stress
is
a
major
abiotic
factor
that
affects
rapeseed
(Brassica
napus
L.)
productivity.
Though
previous
studies
indicated
long
non-coding
RNAs
(lncRNAs)
play
key
role
in
response
to
drought
stress,
scheme
for
genome-wide
identification
and
characterization
of
lncRNAs’
still
lacking,
especially
the
case
B.
napus.
In
order
further
understand
molecular
mechanism
we
compared
changes
transcriptome
between
Q2
(a
drought-tolerant
genotype)
Qinyou8
drought-sensitive
rehydration
treatment
at
seedling
stage.
Results:
A
total
5,546
down-regulated
6,997
up-regulated
mRNAs
were
detected
with
7,824
10,251
Qinyou8,
respectively;
369
108
lncRNAs
449
257
respectively.
LncRNA-
mRNA
interaction
network
analysis
co-expression
was
composed
145
nodes
5,175
connections,
while
305
22,327
connections.
We
identified
34
TFs
corresponding
126
differentially
expressed
Q2,
45
359
Qinyou8.
Differential
expression
up-
co-expressed
participated
different
metabolic
pathways
involved
regulatory
mechanisms
two
genotypes.
Notably,
some
BnaC07g44670D,
which
are
associated
plant
hormone
signal
transduction.
Additionally,
co-located
XLOC_052298,
XLOC_094954
XLOC_012868
mainly
categorized
as
transport
defense/stress
response.
Conclusions:
The
results
this
study
increased
our
understanding
re-watering,
would
be
useful
provide
reference
function
action
under
re-watering.
BMC Plant Biology,
Journal Year:
2020,
Volume and Issue:
20(1)
Published: Oct. 12, 2020
Abstract
Background
The
immobile
nature
of
plants
means
that
they
can
be
frequently
confronted
by
various
biotic
and
abiotic
stresses
during
their
lifecycle.
Among
the
stresses,
water
stress,
temperature
extremities,
salinity,
heavy
metal
toxicity
are
major
challenging
overall
plant
growth.
Plants
have
evolved
complex
molecular
mechanisms
to
adapt
under
given
stresses.
Long
non-coding
RNAs
(lncRNAs)—a
diverse
class
contain
>
200
nucleotides(nt)—play
an
essential
role
in
adaptation
Results
LncRNAs
play
a
significant
as
‘biological
regulators’
for
developmental
processes
stress
responses
animals
at
transcription,
post-transcription,
epigenetic
level,
targeting
stress-responsive
mRNAs,
regulatory
gene(s)
encoding
transcription
factors,
numerous
microRNAs
(miRNAs)
regulate
expression
different
genes.
However,
mechanistic
lncRNAs
possible
target
contributing
response
adaptation,
remain
largely
unknown.
Here,
we
review
types
found
species,
with
focus
on
understanding
contribute
tolerance
plants.
We
start
discussing
biogenesis,
type
function,
phylogenetic
relationships,
sequence
conservation
lncRNAs.
Next,
controlling
including
drought,
heat,
cold,
toxicity,
nutrient
deficiency,
relevant
examples
from
species.
Lastly,
briefly
discuss
lncRNA
databases
bioinformatics
predicting
structural
functional
annotation
novel
Conclusions
Understanding
intricate
is
its
infancy.
availability
comprehensive
atlas
across
whole
genomes
crop
plants,
coupled
responses,
will
enable
us
use
potential
biomarkers
tailoring
stress-tolerant
future.
Genes,
Journal Year:
2019,
Volume and Issue:
10(2), P. 138 - 138
Published: Feb. 13, 2019
Long
non-coding
RNAs
(lncRNAs)
have
emerged
as
important
regulators
in
plant
stress
response.
Here,
we
report
a
genome-wide
lncRNA
transcriptional
analysis
response
to
drought
using
an
expanded
series
of
maize
samples
collected
from
three
distinct
tissues
spanning
four
developmental
stages.
In
total,
3488
high-confidence
lncRNAs
were
identified,
among
which
1535
characterized
responsive.
By
characterizing
the
genomic
structure
and
expression
pattern,
found
that
structures
less
complex
than
protein-coding
genes,
showing
shorter
transcripts
fewer
exons.
Moreover,
drought-responsive
exhibited
higher
tissue-
development-specificity
genes.
exploring
temporal
patterns
at
different
stages,
discovered
reproductive
stage
R1
was
most
sensitive
growth
with
more
altered
upon
stress.
Furthermore,
target
prediction
revealed
653
potential
lncRNA-messenger
RNA
(mRNA)
pairs,
124
pairs
function
cis-acting
mode
529
trans.
Functional
enrichment
showed
targets
significantly
enriched
molecular
functions
related
oxidoreductase
activity,
water
binding,
electron
carrier
activity.
Multiple
promising
discovered,
including
V-ATPase
encoding
gene,
vpp4.
These
findings
extend
our
knowledge
International Journal of Molecular Sciences,
Journal Year:
2021,
Volume and Issue:
22(22), P. 12519 - 12519
Published: Nov. 20, 2021
Drought
stress
causes
changes
in
the
morphological,
physiological,
biochemical
and
molecular
characteristics
of
plants.
The
response
to
drought
different
plants
may
vary
from
avoidance,
tolerance
escape
recovery
stress.
This
is
genetically
programmed
regulated
a
very
complex
yet
synchronized
manner.
crucial
genetic
regulations
mediated
by
non-coding
RNAs
(ncRNAs)
have
emerged
as
game-changers
modulating
plant
responses
other
abiotic
stresses.
ncRNAs
interact
with
their
targets
form
potentially
subtle
regulatory
networks
that
control
multiple
genes
determine
overall
Many
long
small
drought-responsive
been
identified
characterized
varieties.
miRNA-based
research
better
documented,
while
lncRNA
transposon-derived
are
relatively
new,
cellular
role
beginning
be
understood.
In
this
review,
we
compiled
information
on
categorization
based
biogenesis
function.
We
also
discuss
available
literature
mitigating
BMC Plant Biology,
Journal Year:
2020,
Volume and Issue:
20(1)
Published: Feb. 19, 2020
Drought
stress
is
a
major
abiotic
factor
that
affects
rapeseed
(Brassica
napus
L.)
productivity.
Though
previous
studies
indicated
long
non-coding
RNAs
(lncRNAs)
play
key
role
in
response
to
drought
stress,
scheme
for
genome-wide
identification
and
characterization
of
lncRNAs'
still
lacking,
especially
the
case
B.
napus.
In
order
further
understand
molecular
mechanism
we
compared
changes
transcriptome
between
Q2
(a
drought-tolerant
genotype)
Qinyou8
drought-sensitive
responding
rehydration
treatment
at
seedling
stage.
A
total
5546
down-regulated
6997
up-regulated
mRNAs
were
detected
with
7824
10,251
Qinyou8,
respectively;
369
108
up-
regulated
lncRNAs
449
257
respectively.
LncRNA-mRNA
interaction
network
analysis
co-expression
was
composed
145
nodes
5175
connections,
while
305
22,327
connections.
We
identified
34
transcription
factors
(TFs)
corresponding
126
differentially
expressed
Q2,
45
TFs
359
Qinyou8.
Differential
expression
co-expressed
participated
different
metabolic
pathways
involved
regulatory
mechanisms
two
genotypes.
Notably,
some
BnaC07g44670D,
which
are
associated
plant
hormone
signal
transduction.
Additionally,
co-located
XLOC_052298,
XLOC_094954
XLOC_012868
mainly
categorized
as
transport
defense/stress
response.
The
results
this
study
increased
our
understanding
re-watering,
would
be
useful
provide
reference
function
action
under
re-watering.
Genomics,
Journal Year:
2022,
Volume and Issue:
114(4), P. 110383 - 110383
Published: May 10, 2022
Pollen
development
is
particularly
susceptible
to
drought
stress.
Long
non-coding
RNAs
(lncRNAs)
are
known
play
a
role
in
plant
and
responses
However,
the
expression
profile
putative
function
of
lncRNAs
drought-induced
male
sterility
remain
largely
unknown.
In
this
study,
we
investigated
lncRNA
transcriptome
landscape
tomato
anthers
at
early
late
stages-tetrad-vacuolated
microspore
(TED-VUM)
binucleate-mature
pollen
(BIN-MP)
anthers,
respectively-in
response
stress
using
RNA-sequencing.
total,
identified
67,770
lncRNAs,
which
3053
were
responsive.
Interestingly,
there
more
differentially
expressed
(DE)
TED-VUM
(2879)
than
BIN-MP
(174)
was
consistent
with
being
sensitive.
Functional
enrichment
analysis
revealed
that
target
genes
DE
significantly
enriched
diverse
metabolic
processes,
including
carbohydrate
metabolism
hormone
synthesis.
Co-expression
also
1407
strongly
co-expressed
8
involved
(abscisic
acid
jasmonic
acid)
(sucrose
starch)
metabolisms
tapetum
development,
highlighting
potential
lncRNA-target-gene
modulation
anther
under
Our
results
serve
as
baseline
for
future
investigations
reproductive
BMC Genomics,
Journal Year:
2021,
Volume and Issue:
22(1)
Published: Dec. 1, 2021
Abstract
Background
As
a
popular
and
valuable
technique,
grafting
is
widely
used
to
protect
against
soil-borne
diseases
nematodes
in
vegetable
production.
Growing
evidences
have
revealed
that
long
intergenic
ncRNAs
(lincRNAs)
are
strictly
regulated
play
essential
roles
plants
development
stress
responses.
Nevertheless,
genome-wide
identification
function
deciphering
of
pepper
lincRNAs,
especially
for
their
improving
resistance
Phytophthora
capsici
largely
unknown.
Results
In
this
study,
RNA-seq
data
control
with
or
without
P
.
inoculation
were
identify
lincRNAs.
total,
2,388
reliable
lincRNAs
identified.
They
relatively
longer
contained
few
exons
than
protein-coding
genes.
Similar
coding
genes,
had
higher
densities
euchromatin
regions;
chromosome
transcribed
more
Expression
pattern
profiling
suggested
commonly
lower
expression
mRNAs.
Totally,
607
differentially
expressed
(DE-lincRANs)
identified,
which
172
found
between
sample
GR
susceptible
LDS.
The
neighboring
genes
DE-lincRNAs
miRNAs
competitively
sponged
by
Subsequently,
the
level
was
further
confirmed
qRT-PCR
regulation
patterns
mRNAs
also
validated.
Function
annotation
increased
prepper
modulating
disease-defense
related
through
cis
-regulating
and/or
lincRNA-miRNA-mRNA
interaction
networks.
Conclusions
This
study
identified
potential
increasing
