bioRxiv (Cold Spring Harbor Laboratory),
Journal Year:
2023,
Volume and Issue:
unknown
Published: Dec. 30, 2023
High-quality
genome
information
is
essential
for
efficiently
deciphering
and
improving
crop
traits.
Here
we
report
a
highly
contiguous
hexaploid
assembly
the
key
wheat
breeding
parent
Zhou8425B,
an
elite
1BL/1RS
translocation
line
with
durable
adult
plant
resistance
(APR)
against
rust
diseases.
By
using
HiFi
Hi-C
sequencing
reads,
14.75
Gb
assembly,
contig
N50
scaffold
values
reaching
70.94
735.11
Mb,
respectively,
was
developed.
Comparison
16
previously
sequenced
common
cultivars
revealed
unique
chromosomal
structural
features
in
Zhou8425B.
Notably,
1RS
Zhou8425B
apparently
longer
carried
more
genes
encoding
AP2/ERF-ERF
B3
transcription
factors
relative
to
its
counterpart
several
varieties
rye
lines.
Aided
by
new
APR
locus
(i.e.,
YrZH3B)
yellow
(YR)
disease
finely
mapped
1
-
2
Mb
interval
on
chromosome
3BS.
Analysis
212
derivative
showed
that
pyramiding
of
YrZH3B
two
other
loci
(YrZH22
YrZH84)
significantly
decreased
YR
severity
enhanced
grain
yield,
triple
combination
(YrZH3B/YrZH22/YrZH84)
having
highest
effects.
Our
data
demonstrate
high
value
studying
agronomically
important
genes.
Agronomy,
Journal Year:
2023,
Volume and Issue:
13(7), P. 1709 - 1709
Published: June 26, 2023
A
key
concern
in
agriculture
is
how
to
feed
the
expanding
population
and
safeguard
environment
from
ill
effects
of
climate
change.
To
a
growing
global
population,
food
production
security
are
significant
problems,
as
output
may
need
double
by
2050.
Thus,
more
innovative
effective
approaches
for
increasing
agricultural
productivity
(hence,
production)
required
meet
rising
demand
food.
The
world’s
most
widely
cultivated
grains
include
corn,
wheat,
rice,
which
serve
foundation
basic
foods.
This
review
focuses
on
some
up-to-date
that
boost
barley,
oat
yields
with
insight
into
molecular
technology
genetics
raise
resource-efficient
use
these
important
grains.
Although
red
light
management
genetic
manipulation
show
maximal
grain
yield
enhancement,
other
covered
strategies
including
bacterial-nutrient
management,
solar
brightening,
facing
abiotic
stress
through
systems,
fertilizer
harmful
gas
emissions
reduction,
photosynthesis
tolerance,
disease
resistance,
varietal
improvement
also
enhance
increase
plant
resistance
environmental
circumstances.
study
discusses
potential
challenges
addressed
possible
future
perspectives.
International Journal of Molecular Sciences,
Journal Year:
2025,
Volume and Issue:
26(4), P. 1466 - 1466
Published: Feb. 10, 2025
The
advancement
of
multi-omics
tools
has
revolutionized
the
study
complex
biological
systems,
providing
comprehensive
insights
into
molecular
mechanisms
underlying
critical
traits
across
various
organisms.
By
integrating
data
from
genomics,
transcriptomics,
metabolomics,
and
other
omics
platforms,
researchers
can
systematically
identify
characterize
elements
that
contribute
to
phenotypic
traits.
This
review
delves
recent
progress
in
applying
approaches
elucidate
genetic,
epigenetic,
metabolic
networks
associated
with
key
plants.
We
emphasize
potential
these
integrative
strategies
enhance
crop
improvement,
optimize
agricultural
practices,
promote
sustainable
environmental
management.
Furthermore,
we
explore
future
prospects
field,
underscoring
importance
cutting-edge
technological
advancements
need
for
interdisciplinary
collaboration
address
ongoing
challenges.
bridging
this
aims
provide
a
holistic
framework
advancing
research
plant
biology
agriculture.
Plants,
Journal Year:
2022,
Volume and Issue:
11(19), P. 2625 - 2625
Published: Oct. 6, 2022
Climate
change
poses
a
serious
threat
to
global
agricultural
activity
and
food
production.
Plant
genome
editing
technologies
have
been
widely
used
develop
crop
varieties
with
superior
qualities
or
can
tolerate
adverse
environmental
conditions.
Unlike
conventional
breeding
techniques
(e.g.,
selective
mutation
breeding),
modern
tools
offer
more
targeted
specific
alterations
of
the
plant
could
significantly
speed
up
progress
developing
crops
desired
traits,
such
as
higher
yield
and/or
stronger
resilience
changing
environment.
In
this
review,
we
discuss
current
development
future
applications
in
mitigating
impacts
biotic
abiotic
stresses
on
agriculture.
We
focus
specifically
CRISPR/Cas
system,
which
has
center
attention
last
few
years
revolutionary
genome-editing
tool
various
species.
also
conducted
bibliographic
analysis
CRISPR-related
papers
published
from
2012
2021
(10
years)
identify
trends
potential
CRISPR/Cas-related
research.
addition,
review
article
outlines
shortcomings
challenges
employing
agriculture
notes
prospective.
believe
combining
innovative
would
be
key
optimizing
improvement
beyond
limitations
traditional
practices.
Sustainability,
Journal Year:
2024,
Volume and Issue:
16(13), P. 5688 - 5688
Published: July 3, 2024
In
agriculture,
especially
in
crop
breeding,
innovative
approaches
are
required
to
address
the
urgent
issues
posed
by
climate
change
and
global
food
security.
Artificial
intelligence
(AI)
is
a
revolutionary
technology
wheat
breeding
that
provides
new
improve
ability
of
crops
withstand
produce
higher
yields
response
changing
circumstances.
This
review
paper
examines
incorporation
artificial
into
conventional
methods,
with
focus
on
contribution
AI
tackling
intricacies
contemporary
agriculture.
aims
assess
influence
technologies
enhancing
efficiency,
precision,
sustainability
projects.
We
conduct
thorough
analysis
recent
research
evaluate
several
applications
intelligence,
such
as
machine
learning
(ML),
deep
(DL),
genomic
selection
(GS).
These
expedite
swift
interpretation
extensive
datasets,
augmenting
process
selecting
varieties
well-suited
wide
range
environmental
The
findings
from
examined
demonstrate
notable
progress
result
intelligence.
ML
algorithms
have
enhanced
precision
predicting
phenotypic
traits,
whereas
has
reduced
duration
cycles.
Utilizing
high-throughput
phenotyping
allows
for
meticulous
examination
plant
characteristics
under
different
stress
environments,
facilitating
identification
robust
varieties.
Furthermore,
AI-driven
models
exhibited
superior
predicted
accuracies
productivity
disease
resistance
comparison
methods.
play
crucial
role
modernization
providing
significant
enhancements
performance
adaptability.
integration
not
only
facilitates
growth
cultivars
provide
large
can
stressful
conditions
but
also
strengthens
security
context
change.
Ongoing
study
collaboration
across
fields
improving
optimizing
these
applications,
ultimately
their
sustainable
PLoS Computational Biology,
Journal Year:
2025,
Volume and Issue:
21(4), P. e1012953 - e1012953
Published: April 17, 2025
Studying
the
mechanisms
underlying
genotype-phenotype
association
is
crucial
in
genetics.
Gene
expression
studies
have
deepened
our
understanding
of
genotype
→
phenotype
mechanisms.
However,
traditional
quantitative
trait
loci
(eQTL)
methods
often
overlook
critical
role
gene
co-expression
networks
translating
into
phenotype.
This
gap
highlights
need
for
more
powerful
statistical
to
analyze
network
mechanism.
Here,
we
develop
a
network-based
method,
called
spectral
analysis
(snQTL),
map
affecting
networks.
Our
approach
tests
between
genotypes
and
joint
differential
via
tensor-based
statistics,
thereby
overcoming
ubiquitous
multiple
testing
challenges
existing
methods.
We
demonstrate
effectiveness
snQTL
three-spined
stickleback
(
Gasterosteus
aculeatus
)
data.
Compared
conventional
methods,
method
uncovers
chromosomal
regions
networks,
including
one
strong
candidate
that
would
been
missed
by
eQTL
analyses.
framework
suggests
limitation
current
approaches
offers
tool
functional
discoveries.
Journal of Experimental Botany,
Journal Year:
2024,
Volume and Issue:
75(8), P. 2385 - 2402
Published: Feb. 8, 2024
Abstract
Flowering
time
and
plant
height
are
two
critical
determinants
of
yield
potential
in
barley
(Hordeum
vulgare).
Despite
their
role
physiological
regulation,
a
complete
overview
the
genetic
complexity
flowering
regulation
is
still
lacking.
Using
double
round-robin
population
originated
from
crossings
23
diverse
parental
inbred
lines,
we
aimed
to
determine
variance
components
as
well
identify
new
variants
by
single
multi-population
QTL
analyses
allele
mining.
similar
genotypic
variance,
observed
higher
environmental
for
than
time.
Furthermore,
detected
QTLs
height.
Finally,
identified
functional
allelic
variant
main
regulatory
gene
Ppd-H1.
Our
results
show
that
architecture
might
be
more
complex
reported
earlier
number
undetected,
small
effect,
or
low-frequency
underlie
control
these
traits.
Plant Physiology and Biochemistry,
Journal Year:
2024,
Volume and Issue:
208, P. 108483 - 108483
Published: March 1, 2024
Plants
produce
a
myriad
of
specialized
compounds
in
response
to
threats
such
as
pathogens
or
pests
and
different
abiotic
factors.
The
stress-related
induction
metabolites
can
be
mimicked
using
silver
nitrate
(AgNO