Plant Communications,
Journal Year:
2024,
Volume and Issue:
5(9), P. 100983 - 100983
Published: June 5, 2024
Whole-genome
genotyping
(WGG)
stands
as
a
pivotal
element
in
genomic-assisted
plant
breeding.
Nevertheless,
sequencing-based
approaches
for
WGG
continue
to
be
costly,
primarily
owing
the
high
expenses
associated
with
library
preparation
and
laborious
protocol.
During
prior
development
of
foreground
background
integrated
by
sequencing
(FBI-seq),
we
discovered
that
any
sequence-specific
primer
(SP)
inherently
possesses
capability
amplify
massive
array
stable
reproducible
non-specific
PCR
products
across
genome.
Here,
further
improved
FBI-seq
replacing
adapter
ligated
Tn5
transposase
an
arbitrary
degenerate
(AD)
primer.
The
protocol
enhanced
unexpectedly
mirrors
simplified
thermal
asymmetric
interlaced
(TAIL)-PCR,
technique
is
widely
used
isolation
flanking
sequences.
However,
TAIL-PCR
maximizes
primer-template
mismatched
annealing
capabilities
both
SP
AD
primers.
In
addition,
leveraging
next-generation
enhances
ability
this
assay
tens
thousands
genome-wide
loci
species.
This
cost-effective,
user-friendly,
powerful
tool,
which
have
named
(TAIL-peq),
holds
great
potential
widespread
application
breeding
programs,
thereby
facilitating
genome-assisted
crop
improvement.
International Journal of Molecular Sciences,
Journal Year:
2022,
Volume and Issue:
23(9), P. 4994 - 4994
Published: April 30, 2022
Soybean
is
a
major
crop
that
provides
essential
protein
and
oil
for
food
feed.
Since
its
origin
in
China
over
5000
years
ago,
soybean
has
spread
throughout
the
world,
becoming
second
most
important
vegetable
primary
source
of
plant
global
consumption.
From
early
domestication
artificial
selection
through
hybridization
ultimately
molecular
breeding,
history
breeding
parallels
advances
science
centuries.
Now,
rapid
progress
omics
ushering
new
era
precision
design
exemplified
by
engineering
elite
varieties
with
specific
compositions
to
meet
various
end-use
targets.
The
assembly
reference
genomes,
made
possible
development
genome
sequencing
technology
bioinformatics
past
20
years,
was
great
step
forward
research.
It
facilitated
transcriptomics,
proteomics,
metabolomics,
phenomics,
all
which
paved
way
an
integrated
approach
soybean.
In
this
review,
we
summarize
latest
research,
highlight
novel
findings
techniques,
note
current
drawbacks
areas
further
suggest
efficient
multi-omics
may
accelerate
future.
This
review
will
be
interest
not
only
breeders
but
also
researchers
interested
use
cutting-edge
technologies
research
improvement.
Frontiers in Plant Science,
Journal Year:
2022,
Volume and Issue:
13
Published: May 3, 2022
Chile
pepper
(
Capsicum
spp.)
is
a
major
culinary,
medicinal,
and
economic
crop
in
most
areas
of
the
world.
For
more
than
hundreds
years,
chile
peppers
have
“defined”
state
New
Mexico,
USA.
The
official
question,
“
Red
or
Green
?”
refers
to
preference
for
either
red
green
stage
pepper,
respectively,
reflects
value
these
important
commodities.
presence
diseases,
low
yields,
decreased
acreages,
costs
associated
with
manual
labor
limit
production
all
growing
regions
Mexico
State
University
(NMSU)
Pepper
Breeding
Program
continues
serve
as
key
player
development
improved
varieties
growers
discoveries
that
assist
plant
breeders
worldwide.
Among
traits
interest
genetic
improvement
include
yield,
disease
resistance,
flavor,
mechanical
harvestability.
While
progress
has
been
made,
use
conventional
breeding
approaches
yet
fully
address
producer
consumer
demand
available
cultivars.
Recent
developments
“multi-omics,”
is,
simultaneous
application
multiple
omics
study
biological
systems,
allowed
dissection
phenotypes.
Given
current
needs
constraints,
availability
multi-omics
tools,
it
would
be
relevant
examine
improvement.
In
this
review,
we
summarize
present
novel
tools
can
implemented
facilitate
future,
anticipated
data
driven
advanced
genetics,
breeding,
phenotyping
are
developed.
Frontiers in Bioinformatics,
Journal Year:
2022,
Volume and Issue:
2
Published: Oct. 19, 2022
With
the
rapid
development
of
next-generation
sequencing
(NGS),
multi-omics
techniques
have
been
emerging
as
effective
approaches
for
crop
improvement.
Here,
we
focus
mainly
on
addressing
current
status
and
future
perspectives
toward
omics-related
technologies
bioinformatic
resources
with
potential
applications
in
breeding.
Using
a
large
amount
omics-level
data
from
functional
genome,
transcriptome,
proteome,
epigenome,
metabolome,
microbiome,
clarifying
interaction
between
gene
phenotype
formation
will
become
possible.
The
integration
datasets
pan-omics
platforms
systems
biology
could
predict
complex
traits
crops
elucidate
regulatory
networks
genetic
Different
scales
trait
predictions
decision-making
models
facilitate
breeding
more
intelligent.
Potential
challenges
that
integrate
studies
function
their
network
to
efficiently
select
desirable
agronomic
are
discussed
by
proposing
some
cutting-edge
strategies
Multi-omics-integrated
together
other
artificial
intelligence
contribute
broadening
deepening
our
knowledge
precision
breeding,
resulting
speeding
up
process.
Frontiers in Plant Science,
Journal Year:
2023,
Volume and Issue:
14
Published: Oct. 3, 2023
Crop
breeding
is
one
of
the
main
approaches
to
increase
crop
yield
and
improve
quality.
However,
process
faces
challenges
such
as
complex
data,
difficulties
in
data
acquisition,
low
prediction
accuracy,
resulting
efficiency
long
cycle.
Deep
learning-based
a
strategy
that
applies
deep
learning
techniques
optimize
process,
leading
accelerated
improvement,
enhanced
efficiency,
development
higher-yielding,
more
adaptive,
disease-resistant
varieties
for
agricultural
production.
This
perspective
briefly
discusses
mechanisms,
key
applications,
impact
breeding.
We
also
highlight
current
associated
with
this
topic
provide
insights
into
its
future
application
prospects.
New Crops,
Journal Year:
2023,
Volume and Issue:
1, P. 100007 - 100007
Published: Dec. 15, 2023
Crops,
because
of
their
sessile
lifestyle,
inevitably
experience
dynamic
environmental
conditions,
and
capacity
to
adapt
these
changes
is
central
growth,
survival,
crop
productivity.
A
that
has
been
specifically
engineered
be
sensitive
rapidly
tilt
the
balance
between
stress
responses
growth
regulation
defined
as
a
"SMART
CROP."
In
examining
demands
for
crops
with
highest
yield
quality,
efforts
have
made
create
SMART
CROPs
in
past
decades.
this
review,
we
highlight
mechanisms
identified
enhance
properties
smart
describe
technologies
features
underlying
advancement
crops.
